- g() - Method in enum org.nmdp.ngs.fca.Partial.Order
-
- gapOpens() - Method in class org.nmdp.ngs.align.HighScoringPair
-
Return the gap opens for this high-scoring segment pair (HSP).
- GapPenalties - Class in org.nmdp.ngs.align
-
Gap penalties.
- GapPenalties.Builder - Class in org.nmdp.ngs.align
-
Gap penalties builder.
- GapPenalties.Builder() - Constructor for class org.nmdp.ngs.align.GapPenalties.Builder
-
- gaps(GappedSymbolList) - Static method in class org.nmdp.ngs.align.Alignments
-
Return the gaps in the specified gapped symbol list as 0-based [closed, open) ranges.
- geneCount - Variable in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
- geneFamily - Variable in class org.nmdp.ngs.hml.jaxb.Typing
-
- geneID - Variable in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
- geneID - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
- geneID - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
- geneID - Variable in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
- GenerateBed - Class in org.nmdp.ngs.tools
-
Generate records in BED format.
- GenerateBed(File, int, int, String, RandomGenerator, RealDistribution) - Constructor for class org.nmdp.ngs.tools.GenerateBed
-
Generate records in BED format.
- GeneratePairedEndReads - Class in org.nmdp.ngs.reads
-
Generate paired-end next generation sequencing (NGS/HTS) reads.
- GeneratePairedEndReads(Sequence, FastqVariant, RandomGenerator, RealDistribution, RealDistribution, QualityStrategy, CoverageStrategy, double, MutationStrategy, Appendable, Appendable, FastqWriter) - Constructor for class org.nmdp.ngs.reads.GeneratePairedEndReads
-
Generate paired-end next generation sequencing (NGS/HTS) reads.
- GeneratePairedEndReads - Class in org.nmdp.ngs.tools
-
Generate paired-end next generation sequencing (NGS/HTS) reads.
- GeneratePairedEndReads(File, File, File, RandomGenerator, RealDistribution, RealDistribution, QualityStrategy, CoverageStrategy, double, MutationStrategy) - Constructor for class org.nmdp.ngs.tools.GeneratePairedEndReads
-
Generate paired-end next generation sequencing (NGS/HTS) reads.
- generateParseException() - Method in class org.nmdp.ngs.feature.parser.FeatureParser
-
Generate ParseException.
- GenerateReads - Class in org.nmdp.ngs.reads
-
Generate next generation sequencing (NGS/HTS) reads.
- GenerateReads(Sequence, FastqVariant, RandomGenerator, RealDistribution, QualityStrategy, CoverageStrategy, double, MutationStrategy, Appendable, FastqWriter) - Constructor for class org.nmdp.ngs.reads.GenerateReads
-
Generate next generation sequencing (NGS/HTS) reads.
- GenerateReads - Class in org.nmdp.ngs.tools
-
Generate next generation sequencing (NGS/HTS) reads.
- GenerateReads(File, File, RandomGenerator, RealDistribution, QualityStrategy, CoverageStrategy, double, MutationStrategy) - Constructor for class org.nmdp.ngs.tools.GenerateReads
-
Generate next generation sequencing (NGS/HTS) reads.
- genes - Variable in class org.nmdp.ngs.gtr.jaxb.SubmissionSummaryType
-
- GeneSetType - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for GeneSetType complex type.
- GeneSetType() - Constructor for class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
- geneSymbol - Variable in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
- geneSymbol - Variable in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
- geneTestings - Variable in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
- geneticCounselingReqPost - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
- geneticCounselingReqPre - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
- Genewise - Class in org.nmdp.ngs.align
-
Utility to run genewise via the command line.
- GenewiseExon - Class in org.nmdp.ngs.align
-
Genewise exon.
- genewiseExons(File, File) - Static method in class org.nmdp.ngs.align.Genewise
-
Return the exons predicted from the alignment of the specified amino acid HMM file in HMMER2 format against
the specified genomic DNA sequence file in FASTA format.
- genotype(String, String, String...) - Method in class org.nmdp.ngs.variant.vcf.VcfParseAdapter
-
- genotype(String, String, String...) - Method in interface org.nmdp.ngs.variant.vcf.VcfParseListener
-
Notify this parse listener of genotype fields.
- GenotypeList - Class in org.nmdp.ngs.hml.jaxb
-
A genotype-list represents a full unambiguous list of possibilities for
the typing of a sample (NOTE: This element and its children were deprecated
in HML 1.0).
- GenotypeList() - Constructor for class org.nmdp.ngs.hml.jaxb.GenotypeList
-
- getAbiSolid() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the abiSolid property.
- getAbiSolid() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the abiSolid property.
- getAbiSolid() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the abiSolid property.
- getAbiSolid() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the abiSolid property.
- getAbiSolid() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the abiSolid property.
- getAbiSolid() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the abiSolid property.
- getAbiSolid() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the abiSolid property.
- getAcc() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinVarAcc
-
Gets the value of the acc property.
- getAccession() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Standard
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType.Sequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Standard
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType.Sequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Standard
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType.Sequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Standard
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType.Sequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Standard
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType.Sequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Standard
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType.Sequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Standard
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType.Sequence
-
Gets the value of the accession property.
- getAccession() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the accession property.
- getAcronymSet() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Gets the value of the acronymSet property.
- getActions() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions
-
Gets the value of the actions property.
- getActions() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the actions property.
- getAdd() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the add property.
- getAffects() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the affects property.
- getAfterTesting() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.Research
-
Gets the value of the afterTesting property.
- getAims() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the aims property.
- getAlias() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the alias property.
- getAlias() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Gets the value of the alias property.
- getAlias() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the alias property.
- getAlias() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the alias property.
- getAlias() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the alias property.
- getAlias() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the alias property.
- getAlias() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the alias property.
- getAllele() - Method in class org.nmdp.ngs.hml.jaxb.AlleleList
-
Gets the value of the allele property.
- getAlleleAssignment() - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Gets the value of the alleleAssignment property.
- getAlleleDb() - Method in class org.nmdp.ngs.hml.jaxb.AlleleAssignment
-
Gets the value of the alleleDb property.
- getAlleleList() - Method in class org.nmdp.ngs.hml.jaxb.LocusBlock
-
Gets the value of the alleleList property.
- getAlleles() - Method in class org.nmdp.ngs.feature.VcfRecord
-
- getAlleleVersion() - Method in class org.nmdp.ngs.hml.jaxb.AlleleAssignment
-
Gets the value of the alleleVersion property.
- getAlt() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the alternate alleles for this VCF record.
- getAlternateBases() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the alternateBases property.
- getAmplification() - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Gets the value of the amplification property.
- getAnalysisAttributes() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisAttributes
-
Gets the value of the analysisAttributes property.
- getAnalysisAttributes() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the analysisAttributes property.
- getAnalysisCenter() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the analysisCenter property.
- getAnalysisDate() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the analysisDate property.
- getAnalysises() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisSet
-
Gets the value of the analysises property.
- getAnalysisLinks() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisLinks
-
Gets the value of the analysisLinks property.
- getAnalysisLinks() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the analysisLinks property.
- getAnalysisReves() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the analysisReves property.
- getAnalysisType() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the analysisType property.
- getAnalyticalValidity() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the analyticalValidity property.
- getAnnotation() - Method in class org.nmdp.ngs.feature.Sample
-
- getAnonymizedName() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Gets the value of the anonymizedName property.
- getAny() - Method in class org.nmdp.ngs.hml.jaxb.Property
-
Gets the value of the any property.
- getApplicationNumber() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Gets the value of the applicationNumber property.
- getApprovalDocuments() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Gets the value of the approvalDocuments property.
- getApprovalDocumentsFile() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Gets the value of the approvalDocumentsFile property.
- getAsciiOffset() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the asciiOffset property.
- getAssayLimitations() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the assayLimitations property.
- getAssembly() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType
-
Gets the value of the assembly property.
- getAssembly() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType
-
Gets the value of the assembly property.
- getAssertion() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the assertion property.
- getAttribute() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Gets the value of the attribute property.
- getAttributeComplexSets() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the attributeComplexSets property.
- getAttributeComplexSets() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the attributeComplexSets property.
- getAttributeComplexSets() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the attributeComplexSets property.
- getAttributeComplexSets() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the attributeComplexSets property.
- getAttributes() - Method in class org.nmdp.ngs.fca.ConceptLattice
-
- getAttributes() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the attributes property.
- getAttributes() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the attributes property.
- getAttributes() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the attributes property.
- getAttributes() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the attributes property.
- getAvailability() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the availability property.
- getAvailability() - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Gets the value of the availability property.
- getAvailability() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Gets the value of the availability property.
- getBasecalls() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the basecalls property.
- getBasecalls() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the basecalls property.
- getBasecalls() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the basecalls property.
- getBasecalls() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the basecalls property.
- getBasecalls() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the basecalls property.
- getBasecalls() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the basecalls property.
- getBasecalls() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the basecalls property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the baseCoord property.
- getBaseCoord() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the baseCoord property.
- getBeginColumn() - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Get token beginning column number.
- getBeginLine() - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Get token beginning line number.
- getBoard() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Gets the value of the board property.
- getBrokerName() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the brokerName property.
- getBrokerName() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Gets the value of the brokerName property.
- getBrokerName() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the brokerName property.
- getBrokerName() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the brokerName property.
- getBrokerName() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the brokerName property.
- getBrokerName() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the brokerName property.
- getBrokerName() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the brokerName property.
- getCancel() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the cancel property.
- getCapillary() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the capillary property.
- getCapillary() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the capillary property.
- getCapillary() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the capillary property.
- getCapillary() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the capillary property.
- getCapillary() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the capillary property.
- getCapillary() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the capillary property.
- getCapillary() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the capillary property.
- getCAPTestLists() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Gets the value of the capTestLists property.
- getCategories() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory
-
Gets the value of the categories property.
- getCategories() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory
-
Gets the value of the categories property.
- getCategories() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory
-
Gets the value of the categories property.
- getCategory() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Gets the value of the category property.
- getCenterCode() - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Gets the value of the centerCode property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the centerName property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Gets the value of the centerName property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the centerName property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the centerName property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the centerName property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the centerName property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the centerName property.
- getCenterName() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the centerName property.
- getCenterProjectName() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the centerProjectName property.
- getCertifications() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Gets the value of the certifications property.
- getCertStatus() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Gets the value of the certStatus property.
- getChecklist() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Gets the value of the checklist property.
- getChecksum() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Gets the value of the checksum property.
- getChecksum() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the checksum property.
- getChecksumMethod() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Gets the value of the checksumMethod property.
- getChecksumMethod() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the checksumMethod property.
- getChr() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Gets the value of the chr property.
- getChr() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Gets the value of the chr property.
- getChrom() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the chromosome for this VCF record.
- getCitationTexts() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Gets the value of the citationTexts property.
- getCitationTexts() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitations
-
Gets the value of the citationTexts property.
- getCitationTexts() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsList
-
Gets the value of the citationTexts property.
- getCitationTexts() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsURL
-
Gets the value of the citationTexts property.
- getCity() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the city property.
- getClinicalSignificance() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the clinicalSignificance property.
- getClinicalTrialsID() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the clinicalTrialsID property.
- getClinicalUtilities() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the clinicalUtilities property.
- getClinicalValidity() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Gets the value of the clinicalValidity property.
- getClinVarAcc() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the clinVarAcc property.
- getClinVarAssertions() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Gets the value of the clinVarAssertions property.
- getClinVarSet() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the clinVarSet property.
- getClinVarSet() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the clinVarSet property.
- getClinVarSourceName() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the clinVarSourceName property.
- getClinVarSubmission() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the clinVarSubmission property.
- getCode() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category
-
Gets the value of the code property.
- getCode() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category
-
Gets the value of the code property.
- getCode() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory.Category
-
Gets the value of the code property.
- getCollectionMethod() - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Gets the value of the collectionMethod property.
- getColumn() - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Deprecated.
- getComment() - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Gets the value of the comment property.
- getComment() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestAddService
-
Gets the value of the comment property.
- getComment() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestService
-
Gets the value of the comment property.
- getComment() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabServices
-
Gets the value of the comment property.
- getComments() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinicalSignificance
-
Gets the value of the comments property.
- getCommonName() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Gets the value of the commonName property.
- getCompleteGenomics() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the completeGenomics property.
- getCompleteGenomics() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the completeGenomics property.
- getCompleteGenomics() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the completeGenomics property.
- getCompleteGenomics() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the completeGenomics property.
- getCompleteGenomics() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the completeGenomics property.
- getCompleteGenomics() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the completeGenomics property.
- getCompleteGenomics() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the completeGenomics property.
- getConfirmation() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd
-
Gets the value of the confirmation property.
- getConfirmation() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd
-
Gets the value of the confirmation property.
- getConsensusSequence() - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Gets the value of the consensusSequence property.
- getConsensusSequenceBlock() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequence
-
Gets the value of the consensusSequenceBlock property.
- getConsentForm() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Gets the value of the consentForm property.
- getContactPolicy() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the contactPolicy property.
- getContacts() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts
-
Gets the value of the contacts property.
- getContacts() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the contacts property.
- getContig() - Method in class org.nmdp.ngs.feature.Locus
-
- getCountry() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the country property.
- getCoverage() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Gets the value of the coverage property.
- getCPTCodes() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the cptCodes property.
- getCredentials() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Gets the value of the credentials property.
- getCUI() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.DescrSet
-
Gets the value of the cui property.
- getCUI() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Gets the value of the cui property.
- getCUI() - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Gets the value of the cui property.
- getCustom() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType
-
Gets the value of the custom property.
- getCustom() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType
-
Gets the value of the custom property.
- getCustom() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType
-
Gets the value of the custom property.
- getCustom() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType
-
Gets the value of the custom property.
- getCustom() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType
-
Gets the value of the custom property.
- getCustom() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType
-
Gets the value of the custom property.
- getCustom() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType
-
Gets the value of the custom property.
- getDataBlock() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the dataBlock property.
- getDataExchangePrograms() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the dataExchangePrograms property.
- getDataSource() - Method in class org.nmdp.ngs.gtr.jaxb.DataSourceType
-
Gets the value of the dataSource property.
- getDate() - Method in class org.nmdp.ngs.hml.jaxb.AlleleAssignment
-
Gets the value of the date property.
- getDate() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequence
-
Gets the value of the date property.
- getDate() - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Gets the value of the date property.
- getDateCreated() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the dateCreated property.
- getDateLastUpdated() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the dateLastUpdated property.
- getDB() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Gets the value of the db property.
- getDB() - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.analysis.XRefType
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.common.XRefType
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.experiment.XRefType
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.run.XRefType
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.sample.XRefType
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.study.XRefType
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Gets the value of the db property.
- getDb() - Method in class org.nmdp.ngs.sra.jaxb.submission.XRefType
-
Gets the value of the db property.
- getDefaultLength() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the defaultLength property.
- getDefaultLength() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the defaultLength property.
- getDefaultLength() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the defaultLength property.
- getDefaultLength() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the defaultLength property.
- getDefaultLength() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the defaultLength property.
- getDefaultLength() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the defaultLength property.
- getDefaultLength() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Gets the value of the defaultLength property.
- getDefaultMember() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType.Pool
-
Gets the value of the defaultMember property.
- getDefinition() - Method in enum org.nmdp.ngs.sra.LibrarySelection
-
Return the definition of this library selection.
- getDefinition() - Method in enum org.nmdp.ngs.sra.LibrarySource
-
Return the definition of this library source.
- getDefinition() - Method in enum org.nmdp.ngs.sra.LibraryStrategy
-
Return the definition of this library strategy.
- getDegrees() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Gets the value of the degrees property.
- getDepartment() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the department property.
- getDescription() - Method in class org.nmdp.ngs.feature.VcfFile.Metadata
-
- getDescription() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitations
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsList
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsURL
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.gtr.jaxb.TextURL
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the description property.
- getDescription() - Method in enum org.nmdp.ngs.sra.FileType
-
Return the description of this file type.
- getDescription() - Method in enum org.nmdp.ngs.sra.InstrumentModel
-
Return the description of this instrument model.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Custom
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Custom
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.TargetedLoci.Locus
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Custom
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Custom
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Custom
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Custom
-
Gets the value of the description property.
- getDescription() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Custom
-
Gets the value of the description property.
- getDescription() - Method in enum org.nmdp.ngs.sra.LibrarySelection
-
Return the description of this library selection.
- getDescription() - Method in enum org.nmdp.ngs.sra.LibrarySource
-
Return the description of this library source.
- getDescription() - Method in enum org.nmdp.ngs.sra.LibraryStrategy
-
Return the description of this library strategy.
- getDescription() - Method in enum org.nmdp.ngs.sra.StudyType
-
Return the description of this study type.
- getDescription() - Method in class org.nmdp.ngs.variant.vcf.VcfGenome
-
Return the description for this VCF genome.
- getDescriptions() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the descriptions property.
- getDescriptions() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the descriptions property.
- getDescriptions() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the descriptions property.
- getDescriptions() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the descriptions property.
- getDescriptor() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the descriptor property.
- getDescrSets() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Gets the value of the descrSets property.
- getDescrSets() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the descrSets property.
- getDesign() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the design property.
- getDesignDescription() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Gets the value of the designDescription property.
- getDiploidCombination() - Method in class org.nmdp.ngs.hml.jaxb.GenotypeList
-
Gets the value of the diploidCombination property.
- getDirectives() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ProcessingType
-
Gets the value of the directives property.
- getDirectives() - Method in class org.nmdp.ngs.sra.jaxb.common.ProcessingType
-
Gets the value of the directives property.
- getDirectives() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ProcessingType
-
Gets the value of the directives property.
- getDirectives() - Method in class org.nmdp.ngs.sra.jaxb.run.ProcessingType
-
Gets the value of the directives property.
- getDirectives() - Method in class org.nmdp.ngs.sra.jaxb.sample.ProcessingType
-
Gets the value of the directives property.
- getDirectives() - Method in class org.nmdp.ngs.sra.jaxb.study.ProcessingType
-
Gets the value of the directives property.
- getDirectives() - Method in class org.nmdp.ngs.sra.jaxb.submission.ProcessingType
-
Gets the value of the directives property.
- getDiseaseTestings() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the diseaseTestings property.
- getDisplayName() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Gets the value of the displayName property.
- getDisplayWeb() - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Gets the value of the displayWeb property.
- getEligibility() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Gets the value of the eligibility property.
- getEmail() - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Gets the value of the email property.
- getEnd() - Method in class org.nmdp.ngs.feature.Locus
-
- getEnd() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the end property.
- getEnd() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the end property.
- getEnd() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the end property.
- getEndColumn() - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Get token end column number.
- getEndLine() - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Get token end line number.
- getEntrezLink() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType
-
Gets the value of the entrezLink property.
- getEntrezLink() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType
-
Gets the value of the entrezLink property.
- getEntrezLink() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType
-
Gets the value of the entrezLink property.
- getEntrezLink() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType
-
Gets the value of the entrezLink property.
- getEntrezLink() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType
-
Gets the value of the entrezLink property.
- getEntrezLink() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType
-
Gets the value of the entrezLink property.
- getEntrezLink() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType
-
Gets the value of the entrezLink property.
- getEntrezUID() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Gets the value of the entrezUID property.
- getEntrezUID() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Gets the value of the entrezUID property.
- getEthnicity() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Gets the value of the ethnicity property.
- getExistingStudyType() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.StudyType
-
Gets the value of the existingStudyType property.
- getExons() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd
-
Gets the value of the exons property.
- getExons() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd
-
Gets the value of the exons property.
- getExpectedBasecallTable() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the expectedBasecallTable property.
- getExpectedBasecallTable() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the expectedBasecallTable property.
- getExpectedBasecallTable() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the expectedBasecallTable property.
- getExpectedBasecallTable() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the expectedBasecallTable property.
- getExpectedBasecallTable() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the expectedBasecallTable property.
- getExpectedBasecallTable() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the expectedBasecallTable property.
- getExpectedBasecallTable() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the expectedBasecallTable property.
- getExpectedCopyNumber() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the expectedCopyNumber property.
- getExperimentAttributes() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.ExperimentAttributes
-
Gets the value of the experimentAttributes property.
- getExperimentAttributes() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the experimentAttributes property.
- getExperimentLinks() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.ExperimentLinks
-
Gets the value of the experimentLinks property.
- getExperimentLinks() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the experimentLinks property.
- getExperimentRef() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the experimentRef property.
- getExperiments() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ExperimentSet
-
Gets the value of the experiments property.
- getExperimentTypes() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceVariation
-
Gets the value of the experimentTypes property.
- getExpirationDate() - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Gets the value of the expirationDate property.
- getExpirationDate() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Gets the value of the expirationDate property.
- getExpirationDate() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Gets the value of the expirationDate property.
- getExtension() - Method in class org.nmdp.ngs.hml.jaxb.Hmlid
-
Gets the value of the extension property.
- getExternalIds() - Method in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
Gets the value of the externalIds property.
- getExternalIds() - Method in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
Gets the value of the externalIds property.
- getExternalIds() - Method in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
Gets the value of the externalIds property.
- getExternalIds() - Method in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
Gets the value of the externalIds property.
- getExternalIds() - Method in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
Gets the value of the externalIds property.
- getExternalIds() - Method in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
Gets the value of the externalIds property.
- getExternalIds() - Method in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
Gets the value of the externalIds property.
- getFax() - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Gets the value of the fax property.
- getFDARegulatoryClearances() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations
-
Gets the value of the fdaRegulatoryClearances property.
- getFields() - Method in class org.nmdp.ngs.variant.vcf.VcfGenotype
-
Return the genotype fields for this VCF genotype.
- getFileFormat() - Method in class org.nmdp.ngs.variant.vcf.VcfHeader
-
Return the file format for this VCF header.
- getFilename() - Method in class org.nmdp.ngs.gtr.jaxb.FileType
-
Gets the value of the filename property.
- getFilename() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Gets the value of the filename property.
- getFilename() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the filename property.
- getFiles() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.Files
-
Gets the value of the files property.
- getFiles() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the files property.
- getFiles() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files
-
Gets the value of the files property.
- getFiles() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock
-
Gets the value of the files property.
- getFiletype() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Gets the value of the filetype property.
- getFiletype() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the filetype property.
- getFilter() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the filter property.
- getFilter() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the filter for this VCF record.
- getFirst() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Gets the value of the first property.
- getFollowsReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the followsReadIndex property.
- getFollowsReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the followsReadIndex property.
- getFollowsReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the followsReadIndex property.
- getFollowsReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the followsReadIndex property.
- getFollowsReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the followsReadIndex property.
- getFollowsReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the followsReadIndex property.
- getFollowsReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the followsReadIndex property.
- getFormat() - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Gets the value of the format property.
- getFormat() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the format for this VCF record.
- getFoundIns() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the foundIns property.
- getFullAnnotation() - Method in class org.nmdp.ngs.feature.VcfFile.Metadata
-
- getGeneCount() - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Gets the value of the geneCount property.
- getGeneFamily() - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Gets the value of the geneFamily property.
- getGeneID() - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Gets the value of the geneID property.
- getGeneID() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
Gets the value of the geneID property.
- getGeneID() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
Gets the value of the geneID property.
- getGeneID() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Gets the value of the geneID property.
- getGenes() - Method in class org.nmdp.ngs.gtr.jaxb.SubmissionSummaryType
-
Gets the value of the genes property.
- getGeneSymbol() - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Gets the value of the geneSymbol property.
- getGeneSymbol() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Gets the value of the geneSymbol property.
- getGeneTestings() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the geneTestings property.
- getGeneticCounselingReqPost() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the geneticCounselingReqPost property.
- getGeneticCounselingReqPre() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the geneticCounselingReqPre property.
- getGenomes() - Method in class org.nmdp.ngs.variant.vcf.VcfSample
-
Return the VCF genomes for this VCF sample.
- getGenotypes() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the genotypes keyed by sample id for this VCF record.
- getGssp() - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Gets the value of the gssp property.
- getGt() - Method in class org.nmdp.ngs.variant.vcf.VcfGenotype
-
Return the value of the GT genotype field for this VCF genotype or null if no such field exists.
- getGTRAccession() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the gtrAccession property.
- getGTRAccession() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the gtrAccession property.
- getGTRLab() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
Gets the value of the gtrLab property.
- getGTRLabDatas() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData
-
Gets the value of the gtrLabDatas property.
- getGTRLabResearchTests() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
Gets the value of the gtrLabResearchTests property.
- getGTRLabTests() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
Gets the value of the gtrLabTests property.
- getHelicos() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the helicos property.
- getHelicos() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the helicos property.
- getHelicos() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the helicos property.
- getHelicos() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the helicos property.
- getHelicos() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the helicos property.
- getHelicos() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the helicos property.
- getHelicos() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the helicos property.
- getHgvs() - Method in class org.nmdp.ngs.hml.jaxb.VariantEffect
-
Gets the value of the hgvs property.
- getHmlid(Hml) - Static method in class org.nmdp.ngs.hml.HmlUtils
-
Return the Hmlid element from the specified HML document, if any.
- getHmlid() - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Gets the value of the hmlid property.
- getHold() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the hold property.
- getHoldUntilDate() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Hold
-
Gets the value of the holdUntilDate property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.Country
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.State
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.DataSourceType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Assertion
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the id property.
- getID() - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.analysis.XRefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.common.XRefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.experiment.XRefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.run.XRefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.sample.XRefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.study.XRefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.sra.jaxb.submission.XRefType
-
Gets the value of the id property.
- getId() - Method in class org.nmdp.ngs.variant.vcf.VcfGenome
-
Return the id for this VCF genome.
- getId() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the array of ids for this VCF record.
- getId() - Method in class org.nmdp.ngs.variant.vcf.VcfSample
-
Return the id for this VCF sample.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the identifiers property.
- getIdentifiers() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the identifiers property.
- getIllumina() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the illumina property.
- getIllumina() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the illumina property.
- getIllumina() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the illumina property.
- getIllumina() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the illumina property.
- getIllumina() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the illumina property.
- getIllumina() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the illumina property.
- getIllumina() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the illumina property.
- GetImage() - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Get token literal value.
- getIndications() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the indications property.
- getIndividualName() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Gets the value of the individualName property.
- getInfo() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the INFO key-value(s) pairs for this VCF record.
- getInformedConsentReq() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the informedConsentReq property.
- getInformOnError() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts.Contact
-
Gets the value of the informOnError property.
- getInformOnStatus() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts.Contact
-
Gets the value of the informOnStatus property.
- getInheritances() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Gets the value of the inheritances property.
- getInstitution() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the institution property.
- getInstitution() - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Gets the value of the institution property.
- getInstitutionAcronyms() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the institutionAcronyms property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.AbiSolid
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Capillary
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.CompleteGenomics
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Helicos
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Illumina
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.IonTorrent
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Ls454
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.PacbioSmrt
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.AbiSolid
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Capillary
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.CompleteGenomics
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Helicos
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Illumina
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.IonTorrent
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Ls454
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.PacbioSmrt
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.AbiSolid
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Capillary
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.CompleteGenomics
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Helicos
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Illumina
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.IonTorrent
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Ls454
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.PacbioSmrt
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.AbiSolid
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Capillary
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.CompleteGenomics
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Helicos
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Illumina
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.IonTorrent
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Ls454
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.PacbioSmrt
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.AbiSolid
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Capillary
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.CompleteGenomics
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Helicos
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Illumina
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.IonTorrent
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Ls454
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.PacbioSmrt
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.AbiSolid
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Capillary
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.CompleteGenomics
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Helicos
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Illumina
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.IonTorrent
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Ls454
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.PacbioSmrt
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.AbiSolid
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Capillary
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.CompleteGenomics
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Helicos
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Illumina
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.IonTorrent
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Ls454
-
Gets the value of the instrumentModel property.
- getInstrumentModel() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.PacbioSmrt
-
Gets the value of the instrumentModel property.
- getInstruments() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category.Methodology
-
Gets the value of the instruments property.
- getInstruments() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category.Methodology
-
Gets the value of the instruments property.
- getInternalValidation() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Gets the value of the internalValidation property.
- getInterpretation() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Gets the value of the interpretation property.
- getIonTorrent() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the ionTorrent property.
- getIonTorrent() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the ionTorrent property.
- getIonTorrent() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the ionTorrent property.
- getIonTorrent() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the ionTorrent property.
- getIonTorrent() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the ionTorrent property.
- getIonTorrent() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the ionTorrent property.
- getIonTorrent() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the ionTorrent property.
- getIRBNumber() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the irbNumber property.
- getItemReviewed() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Gets the value of the itemReviewed property.
- getLabAffiliation() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabAffiliations
-
Gets the value of the labAffiliation property.
- getLabAffiliations() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the labAffiliations property.
- getLabCertifications() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the labCertifications property.
- getLabContacts() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the labContacts property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType.Sequence
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.UrlType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.XRefType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType.Sequence
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.common.UrlType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.common.XRefType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType.Sequence
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.UrlType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.XRefType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType.Sequence
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.run.UrlType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.run.XRefType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType.Sequence
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.sample.UrlType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.sample.XRefType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType.Sequence
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.study.UrlType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.study.XRefType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType.Sequence
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.submission.UrlType
-
Gets the value of the label property.
- getLabel() - Method in class org.nmdp.ngs.sra.jaxb.submission.XRefType
-
Gets the value of the label property.
- getLabName() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the labName property.
- getLabOrderCode() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the labOrderCode property.
- getLabServices() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the labServices property.
- getLabUniqueCode() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the labUniqueCode property.
- getLast() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Gets the value of the last property.
- getLastTouched() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
Gets the value of the lastTouched property.
- getLastTouched() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
Gets the value of the lastTouched property.
- getLastUpdate() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the lastUpdate property.
- getLastUpdate() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
Gets the value of the lastUpdate property.
- getLastUpdate() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
Gets the value of the lastUpdate property.
- getLastUpdated() - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Gets the value of the lastUpdated property.
- getLastUpdated() - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Gets the value of the lastUpdated property.
- getLibraryConstructionProtocol() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the libraryConstructionProtocol property.
- getLibraryDescriptor() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Gets the value of the libraryDescriptor property.
- getLibraryLayout() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the libraryLayout property.
- getLibraryName() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the libraryName property.
- getLibrarySelection() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the librarySelection property.
- getLibrarySource() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the librarySource property.
- getLibraryStrategy() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the libraryStrategy property.
- getLine() - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Deprecated.
- getLine1() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the line1 property.
- getLine2() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the line2 property.
- getLine3() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the line3 property.
- getLineNumber() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the line number for this VCF record.
- getLocations() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the locations property.
- getLocations() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the locations property.
- getLocus() - Method in class org.nmdp.ngs.hml.jaxb.Haploid
-
Gets the value of the locus property.
- getLocus() - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Gets the value of the locus property.
- getLocus() - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Gets the value of the locus property.
- getLocus() - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Gets the value of the locus property.
- getLocus() - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Gets the value of the locus property.
- getLocusBlock() - Method in class org.nmdp.ngs.hml.jaxb.DiploidCombination
-
Gets the value of the locusBlock property.
- getLocuses() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.TargetedLoci
-
Gets the value of the locuses property.
- getLocusName() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.TargetedLoci.Locus
-
Gets the value of the locusName property.
- getLOINC() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the loinc property.
- getLs454() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the ls454 property.
- getLs454() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the ls454 property.
- getLs454() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the ls454 property.
- getLs454() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the ls454 property.
- getLs454() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the ls454 property.
- getLs454() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the ls454 property.
- getLs454() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the ls454 property.
- getMailingAddress() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the mailingAddress property.
- getManufacturerTestName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the manufacturerTestName property.
- getMatchEdge() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the matchEdge property.
- getMatchEdge() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the matchEdge property.
- getMatchEdge() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the matchEdge property.
- getMatchEdge() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the matchEdge property.
- getMatchEdge() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the matchEdge property.
- getMatchEdge() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the matchEdge property.
- getMatchEdge() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the matchEdge property.
- getMaxMismatch() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the maxMismatch property.
- getMaxMismatch() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the maxMismatch property.
- getMaxMismatch() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the maxMismatch property.
- getMaxMismatch() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the maxMismatch property.
- getMaxMismatch() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the maxMismatch property.
- getMaxMismatch() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the maxMismatch property.
- getMaxMismatch() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the maxMismatch property.
- getMeasures() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType
-
Gets the value of the measures property.
- getMeasureSet() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the measureSet property.
- getMechanism() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Gets the value of the mechanism property.
- getMemberName() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Gets the value of the memberName property.
- getMemberName() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock
-
Gets the value of the memberName property.
- getMembers() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType.Pool
-
Gets the value of the members property.
- getMessage() - Method in error org.nmdp.ngs.feature.parser.TokenMgrError
-
You can also modify the body of this method to customize your error messages.
- getMeta() - Method in class org.nmdp.ngs.variant.vcf.VcfHeader
-
Return the meta-information header lines for this VCF header.
- getMethod() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the method property.
- getMethod() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the method property.
- getMethod() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Gets the value of the method property.
- getMethod() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the method property.
- getMethod() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Assertion
-
Gets the value of the method property.
- getMethod() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinicalSignificance
-
Gets the value of the method property.
- getMethod() - Method in class org.nmdp.ngs.hml.jaxb.Haploid
-
Gets the value of the method property.
- getMethodAdd() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the methodAdd property.
- getMethodAdd() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the methodAdd property.
- getMethodologies() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category
-
Gets the value of the methodologies property.
- getMethodologies() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category
-
Gets the value of the methodologies property.
- getMiddle() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Gets the value of the middle property.
- getMinGapLength() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Gets the value of the minGapLength property.
- getMinMatch() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the minMatch property.
- getMinMatch() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the minMatch property.
- getMinMatch() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the minMatch property.
- getMinMatch() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the minMatch property.
- getMinMatch() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the minMatch property.
- getMinMatch() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the minMatch property.
- getMinMatch() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the minMatch property.
- getMixture() - Method in class org.nmdp.ngs.variant.vcf.VcfGenome
-
Return the mixture for this VCF genome.
- getModify() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the modify property.
- getName() - Method in class org.nmdp.ngs.feature.Allele
-
- getName() - Method in class org.nmdp.ngs.feature.Sample
-
- getName() - Method in class org.nmdp.ngs.feature.VcfFile.Metadata
-
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.CredentialType
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.DegreeType
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.LabCertificationType
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.hml.jaxb.Property
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.hml.jaxb.TypingTestName
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Gets the value of the name property.
- getName() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts.Contact
-
Gets the value of the name property.
- getNameAcronyms() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the nameAcronyms property.
- getNames() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the names property.
- getNames() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the names property.
- getNames() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the names property.
- getNames() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the names property.
- getNamespace() - Method in class org.nmdp.ngs.sra.jaxb.analysis.QualifiedNameType
-
Gets the value of the namespace property.
- getNamespace() - Method in class org.nmdp.ngs.sra.jaxb.common.QualifiedNameType
-
Gets the value of the namespace property.
- getNamespace() - Method in class org.nmdp.ngs.sra.jaxb.experiment.QualifiedNameType
-
Gets the value of the namespace property.
- getNamespace() - Method in class org.nmdp.ngs.sra.jaxb.run.QualifiedNameType
-
Gets the value of the namespace property.
- getNamespace() - Method in class org.nmdp.ngs.sra.jaxb.sample.QualifiedNameType
-
Gets the value of the namespace property.
- getNamespace() - Method in class org.nmdp.ngs.sra.jaxb.study.QualifiedNameType
-
Gets the value of the namespace property.
- getNamespace() - Method in class org.nmdp.ngs.sra.jaxb.submission.QualifiedNameType
-
Gets the value of the namespace property.
- getNewStudyType() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.StudyType
-
Gets the value of the newStudyType property.
- getNextToken() - Method in class org.nmdp.ngs.feature.parser.FeatureParser
-
Get the next Token.
- getNextToken() - Method in class org.nmdp.ngs.feature.parser.FeatureParserTokenManager
-
Get the next Token.
- getNominalLength() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout.Paired
-
Gets the value of the nominalLength property.
- getNominalSdev() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout.Paired
-
Gets the value of the nominalSdev property.
- getNotes() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Gets the value of the notes property.
- getNotes() - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Gets the value of the notes property.
- getNotes() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Gets the value of the notes property.
- getNotes() - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Gets the value of the notes property.
- getNotes() - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Gets the value of the notes property.
- getNotes() - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Gets the value of the notes property.
- getNotes() - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Gets the value of the notes property.
- getNumber() - Method in class org.nmdp.ngs.feature.VcfFile.Info
-
- getNumber() - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Gets the value of the number property.
- getNumber() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Gets the value of the number property.
- getNumber() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Gets the value of the number property.
- getNumberOfAffected() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Gets the value of the numberOfAffected property.
- getNumberOfFamilies() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Gets the value of the numberOfFamilies property.
- getNumberOfUnaffected() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Gets the value of the numberOfUnaffected property.
- getObjects() - Method in class org.nmdp.ngs.fca.ConceptLattice
-
- getObservedIns() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the observedIns property.
- getOptionName() - Method in class org.nmdp.ngs.xjc.plugins.SentenceCasePlugin
-
- getOrder() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the order property.
- getOrderableBies() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the orderableBies property.
- getOrderCode() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestAddService
-
Gets the value of the orderCode property.
- getOrderCode() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestService
-
Gets the value of the orderCode property.
- getOrderCode() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabServices
-
Gets the value of the orderCode property.
- getOrganization() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the organization property.
- getOrigin() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Gets the value of the origin property.
- getOtherAttributes() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets a map that contains attributes that aren't bound to any typed property on this class.
- getOtherAttributes() - Method in class org.nmdp.ngs.hml.jaxb.Sequence
-
Gets a map that contains attributes that aren't bound to any typed property on this class.
- getOtherAttributes() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets a map that contains attributes that aren't bound to any typed property on this class.
- getOtherAttributes() - Method in class org.nmdp.ngs.hml.jaxb.VariantEffect
-
Gets a map that contains attributes that aren't bound to any typed property on this class.
- getOtherNames() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the otherNames property.
- getOtherValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility.Type
-
Gets the value of the otherValue property.
- getPacbioSmrt() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Gets the value of the pacbioSmrt property.
- getPacbioSmrt() - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Gets the value of the pacbioSmrt property.
- getPacbioSmrt() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Gets the value of the pacbioSmrt property.
- getPacbioSmrt() - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Gets the value of the pacbioSmrt property.
- getPacbioSmrt() - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Gets the value of the pacbioSmrt property.
- getPacbioSmrt() - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Gets the value of the pacbioSmrt property.
- getPacbioSmrt() - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Gets the value of the pacbioSmrt property.
- getPaired() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout
-
Gets the value of the paired property.
- getParticipation() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the participation property.
- getPerson() - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Gets the value of the person property.
- getPersonnels() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the personnels property.
- getPhaseSet() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the phaseSet property.
- getPhasingGroup() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the phasingGroup property.
- getPhenotypeCount() - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Gets the value of the phenotypeCount property.
- getPhenotypes() - Method in class org.nmdp.ngs.gtr.jaxb.SubmissionSummaryType
-
Gets the value of the phenotypes property.
- getPhone() - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Gets the value of the phone property.
- getPID() - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Gets the value of the pid property.
- getPipeline() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ProcessingType
-
Gets the value of the pipeline property.
- getPipeline() - Method in class org.nmdp.ngs.sra.jaxb.common.ProcessingType
-
Gets the value of the pipeline property.
- getPipeline() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ProcessingType
-
Gets the value of the pipeline property.
- getPipeline() - Method in class org.nmdp.ngs.sra.jaxb.run.ProcessingType
-
Gets the value of the pipeline property.
- getPipeline() - Method in class org.nmdp.ngs.sra.jaxb.sample.ProcessingType
-
Gets the value of the pipeline property.
- getPipeline() - Method in class org.nmdp.ngs.sra.jaxb.study.ProcessingType
-
Gets the value of the pipeline property.
- getPipeline() - Method in class org.nmdp.ngs.sra.jaxb.submission.ProcessingType
-
Gets the value of the pipeline property.
- getPipeSections() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType
-
Gets the value of the pipeSections property.
- getPipeSections() - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType
-
Gets the value of the pipeSections property.
- getPipeSections() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType
-
Gets the value of the pipeSections property.
- getPipeSections() - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType
-
Gets the value of the pipeSections property.
- getPipeSections() - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType
-
Gets the value of the pipeSections property.
- getPipeSections() - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType
-
Gets the value of the pipeSections property.
- getPipeSections() - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType
-
Gets the value of the pipeSections property.
- getPlatform() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Gets the value of the platform property.
- getPlatform() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceVariation
-
Gets the value of the platform property.
- getPlatform() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the platform property.
- getPlatform() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the platform property.
- getPlatforms() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd
-
Gets the value of the platforms property.
- getPlatforms() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd
-
Gets the value of the platforms property.
- getPMIDS() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Gets the value of the pmids property.
- getPMIDS() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitations
-
Gets the value of the pmids property.
- getPMIDS() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsList
-
Gets the value of the pmids property.
- getPMIDS() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsURL
-
Gets the value of the pmids property.
- getPool() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Gets the value of the pool property.
- getPoolingStrategy() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the poolingStrategy property.
- getPos() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the position for this VCF record.
- getPostCode() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the postCode property.
- getPrecedesReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the precedesReadIndex property.
- getPrecedesReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the precedesReadIndex property.
- getPrecedesReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the precedesReadIndex property.
- getPrecedesReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the precedesReadIndex property.
- getPrecedesReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the precedesReadIndex property.
- getPrecedesReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the precedesReadIndex property.
- getPrecedesReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Gets the value of the precedesReadIndex property.
- getPrefix() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Gets the value of the prefix property.
- getPresent() - Method in class org.nmdp.ngs.hml.jaxb.Allele
-
Gets the value of the present property.
- getPrevStepIndices() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Gets the value of the prevStepIndices property.
- getPrevStepIndices() - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Gets the value of the prevStepIndices property.
- getPrevStepIndices() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Gets the value of the prevStepIndices property.
- getPrevStepIndices() - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Gets the value of the prevStepIndices property.
- getPrevStepIndices() - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Gets the value of the prevStepIndices property.
- getPrevStepIndices() - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Gets the value of the prevStepIndices property.
- getPrevStepIndices() - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Gets the value of the prevStepIndices property.
- getPrimaryId() - Method in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
Gets the value of the primaryId property.
- getPrimaryId() - Method in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
Gets the value of the primaryId property.
- getPrimaryId() - Method in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
Gets the value of the primaryId property.
- getPrimaryId() - Method in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
Gets the value of the primaryId property.
- getPrimaryId() - Method in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
Gets the value of the primaryId property.
- getPrimaryId() - Method in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
Gets the value of the primaryId property.
- getPrimaryId() - Method in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
Gets the value of the primaryId property.
- getProbeSet() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.TargetedLoci.Locus
-
Gets the value of the probeSet property.
- getProcessing() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the processing property.
- getProcessing() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the processing property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceVariation
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Gets the value of the program property.
- getProgram() - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Gets the value of the program property.
- getProjectId() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the projectId property.
- getProjectName() - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Gets the value of the projectName property.
- getProperty() - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Gets the value of the property property.
- getProperty() - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Gets the value of the property property.
- getProperty() - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Gets the value of the property property.
- getProperty() - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Gets the value of the property property.
- getProperty() - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Gets the value of the property property.
- getProperty() - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Gets the value of the property property.
- getProperty() - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Gets the value of the property property.
- getPropertyAndHaploidAndGenotypeList() - Method in class org.nmdp.ngs.hml.jaxb.AlleleAssignment
-
Gets the value of the propertyAndHaploidAndGenotypeList property.
- getProportion() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Gets the value of the proportion property.
- getProtect() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the protect property.
- getProtocol() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd
-
Gets the value of the protocol property.
- getProtocol() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the protocol property.
- getProtocol() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd
-
Gets the value of the protocol property.
- getPTDescription() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Gets the value of the ptDescription property.
- getPTProvider() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Gets the value of the ptProvider property.
- getPublicContact() - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Gets the value of the publicContact property.
- getPurpose() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the purpose property.
- getPurposes() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Gets the value of the purposes property.
- getQual() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the QUAL score for this VCF record.
- getQualifier() - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Gets the value of the qualifier property.
- getQualifier() - Method in class org.nmdp.ngs.gtr.jaxb.CredentialType
-
Gets the value of the qualifier property.
- getQualifier() - Method in class org.nmdp.ngs.gtr.jaxb.DegreeType
-
Gets the value of the qualifier property.
- getQualifier() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
Gets the value of the qualifier property.
- getQualifier() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
Gets the value of the qualifier property.
- getQualifier() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Gets the value of the qualifier property.
- getQualityControl() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the qualityControl property.
- getQualityEncoding() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the qualityEncoding property.
- getQualityScore() - Method in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
Gets the value of the qualityScore property.
- getQualityScore() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the qualityScore property.
- getQualityScoringSystem() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the qualityScoringSystem property.
- getQuery() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Gets the value of the query property.
- getQuery() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Gets the value of the query property.
- getQuery() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Gets the value of the query property.
- getQuery() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Gets the value of the query property.
- getQuery() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Gets the value of the query property.
- getQuery() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Gets the value of the query property.
- getQuery() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Gets the value of the query property.
- getRawReads() - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Gets the value of the rawReads property.
- getReadClass() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readClass property.
- getReadClass() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readClass property.
- getReadClass() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readClass property.
- getReadClass() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readClass property.
- getReadClass() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readClass property.
- getReadClass() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readClass property.
- getReadClass() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readClass property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the readGroupTag property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the readGroupTag property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType.ReadLabel
-
Gets the value of the readGroupTag property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the readGroupTag property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the readGroupTag property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the readGroupTag property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the readGroupTag property.
- getReadGroupTag() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the readGroupTag property.
- getReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readIndex property.
- getReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readIndex property.
- getReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readIndex property.
- getReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readIndex property.
- getReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readIndex property.
- getReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readIndex property.
- getReadIndex() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readIndex property.
- getReadLabel() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readLabel property.
- getReadLabel() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readLabel property.
- getReadLabel() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readLabel property.
- getReadLabel() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readLabel property.
- getReadLabel() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readLabel property.
- getReadLabel() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readLabel property.
- getReadLabel() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readLabel property.
- getReadLabels() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Gets the value of the readLabels property.
- getReadLabels() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the readLabels property.
- getReadSpecs() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the readSpecs property.
- getReadSpecs() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the readSpecs property.
- getReadSpecs() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the readSpecs property.
- getReadSpecs() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the readSpecs property.
- getReadSpecs() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the readSpecs property.
- getReadSpecs() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the readSpecs property.
- getReadSpecs() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the readSpecs property.
- getReadType() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readType property.
- getReadType() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readType property.
- getReadType() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readType property.
- getReadType() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readType property.
- getReadType() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readType property.
- getReadType() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readType property.
- getReadType() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the readType property.
- getReContact() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Gets the value of the reContact property.
- getRecontactAnswer() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.ReContact
-
Gets the value of the recontactAnswer property.
- getRecruit() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS.RecruitFamily
-
Gets the value of the recruit property.
- getRecruitFamily() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Gets the value of the recruitFamily property.
- getRecruitmentSites() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Gets the value of the recruitmentSites property.
- getRecruitmentStatus() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Gets the value of the recruitmentStatus property.
- getRef() - Method in class org.nmdp.ngs.variant.vcf.VcfRecord
-
Return the reference allele for this VCF record.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Gets the value of the refcenter property.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Gets the value of the refcenter property.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Gets the value of the refcenter property.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Gets the value of the refcenter property.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Gets the value of the refcenter property.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Gets the value of the refcenter property.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Gets the value of the refcenter property.
- getRefcenter() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Gets the value of the refcenter property.
- getReference() - Method in class org.nmdp.ngs.feature.Allele.Builder
-
- getReferenceAlignment() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Gets the value of the referenceAlignment property.
- getReferenceAlignment() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.RunType
-
Gets the value of the referenceAlignment property.
- getReferenceBases() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the referenceBases property.
- getReferenceDatabase() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequence
-
Gets the value of the referenceDatabase property.
- getReferenceSequence() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Gets the value of the referenceSequence property.
- getReferenceSequence() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Gets the value of the referenceSequence property.
- getReferenceSequenceId() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the referenceSequenceId property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Standard
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType.Sequence
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Standard
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType.Sequence
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Standard
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType.Sequence
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Standard
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType.Sequence
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Standard
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType.Sequence
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Standard
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType.Sequence
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Standard
-
Gets the value of the refname property.
- getRefname() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType.Sequence
-
Gets the value of the refname property.
- getRegulations() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the regulations property.
- getRelatedLink() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.RelatedStudies.RelatedStudy
-
Gets the value of the relatedLink property.
- getRelatedStudies() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the relatedStudies property.
- getRelatedStudies() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.RelatedStudies
-
Gets the value of the relatedStudies property.
- getRelativeOrder() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the relativeOrder property.
- getRelativeOrder() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the relativeOrder property.
- getRelativeOrder() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the relativeOrder property.
- getRelativeOrder() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the relativeOrder property.
- getRelativeOrder() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the relativeOrder property.
- getRelativeOrder() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the relativeOrder property.
- getRelativeOrder() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Gets the value of the relativeOrder property.
- getRelease() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the release property.
- getReportingCenter() - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Gets the value of the reportingCenter property.
- getReportingCenterContext() - Method in class org.nmdp.ngs.hml.jaxb.ReportingCenter
-
Gets the value of the reportingCenterContext property.
- getReportingCenterId() - Method in class org.nmdp.ngs.hml.jaxb.ReportingCenter
-
Gets the value of the reportingCenterId property.
- getReportingPolicy() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Gets the value of the reportingPolicy property.
- getResearch() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Gets the value of the research property.
- getRoot() - Method in class org.nmdp.ngs.hml.jaxb.Hmlid
-
Gets the value of the root property.
- getRunAttributes() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the runAttributes property.
- getRunAttributes() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.RunAttributes
-
Gets the value of the runAttributes property.
- getRunCenter() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the runCenter property.
- getRunDate() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the runDate property.
- getRunLinks() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the runLinks property.
- getRunLinks() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.RunLinks
-
Gets the value of the runLinks property.
- getRunReves() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the runReves property.
- getRuns() - Method in class org.nmdp.ngs.sra.jaxb.run.RunSet
-
Gets the value of the runs property.
- getRunType() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the runType property.
- getSample() - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Gets the value of the sample property.
- getSampleAttributes() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the sampleAttributes property.
- getSampleAttributes() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleAttributes
-
Gets the value of the sampleAttributes property.
- getSampleDemuxDirective() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SequencingDirectivesType
-
Gets the value of the sampleDemuxDirective property.
- getSampleDemuxDirective() - Method in class org.nmdp.ngs.sra.jaxb.common.SequencingDirectivesType
-
Gets the value of the sampleDemuxDirective property.
- getSampleDemuxDirective() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SequencingDirectivesType
-
Gets the value of the sampleDemuxDirective property.
- getSampleDemuxDirective() - Method in class org.nmdp.ngs.sra.jaxb.run.SequencingDirectivesType
-
Gets the value of the sampleDemuxDirective property.
- getSampleDemuxDirective() - Method in class org.nmdp.ngs.sra.jaxb.sample.SequencingDirectivesType
-
Gets the value of the sampleDemuxDirective property.
- getSampleDemuxDirective() - Method in class org.nmdp.ngs.sra.jaxb.study.SequencingDirectivesType
-
Gets the value of the sampleDemuxDirective property.
- getSampleDemuxDirective() - Method in class org.nmdp.ngs.sra.jaxb.submission.SequencingDirectivesType
-
Gets the value of the sampleDemuxDirective property.
- getSampleDescriptor() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Gets the value of the sampleDescriptor property.
- getSampleLinks() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the sampleLinks property.
- getSampleLinks() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleLinks
-
Gets the value of the sampleLinks property.
- getSampleName() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the sampleName property.
- getSampleNegReport() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Gets the value of the sampleNegReport property.
- getSamplePhenotype() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Gets the value of the samplePhenotype property.
- getSamplePosReport() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Gets the value of the samplePosReport property.
- getSampleReves() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the sampleReves property.
- getSamples() - Method in class org.nmdp.ngs.feature.VcfRecord
-
- getSamples() - Method in class org.nmdp.ngs.sra.jaxb.sample.SampleSet
-
Gets the value of the samples property.
- getSampleVUSReport() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Gets the value of the sampleVUSReport property.
- getSchema() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Add
-
Gets the value of the schema property.
- getSchema() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Modify
-
Gets the value of the schema property.
- getSchema() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Validate
-
Gets the value of the schema property.
- getScientificName() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Gets the value of the scientificName property.
- getScores() - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Gets the value of the scores property.
- getScores() - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Gets the value of the scores property.
- getSecondaryIds() - Method in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
Gets the value of the secondaryIds property.
- getSecondaryIds() - Method in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
Gets the value of the secondaryIds property.
- getSecondaryIds() - Method in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
Gets the value of the secondaryIds property.
- getSecondaryIds() - Method in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
Gets the value of the secondaryIds property.
- getSecondaryIds() - Method in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
Gets the value of the secondaryIds property.
- getSecondaryIds() - Method in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
Gets the value of the secondaryIds property.
- getSecondaryIds() - Method in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
Gets the value of the secondaryIds property.
- getSectionName() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Gets the value of the sectionName property.
- getSectionName() - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Gets the value of the sectionName property.
- getSectionName() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Gets the value of the sectionName property.
- getSectionName() - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Gets the value of the sectionName property.
- getSectionName() - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Gets the value of the sectionName property.
- getSectionName() - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Gets the value of the sectionName property.
- getSectionName() - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Gets the value of the sectionName property.
- getSequence() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the sequence property.
- getSequenceAnnotation() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Gets the value of the sequenceAnnotation property.
- getSequenceAssembly() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Gets the value of the sequenceAssembly property.
- getSequenceEnd() - Method in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
Gets the value of the sequenceEnd property.
- getSequenceQuality() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the sequenceQuality property.
- getSequences() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType
-
Gets the value of the sequences property.
- getSequences() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType
-
Gets the value of the sequences property.
- getSequences() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType
-
Gets the value of the sequences property.
- getSequences() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType
-
Gets the value of the sequences property.
- getSequences() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType
-
Gets the value of the sequences property.
- getSequences() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType
-
Gets the value of the sequences property.
- getSequences() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType
-
Gets the value of the sequences property.
- getSequenceStart() - Method in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
Gets the value of the sequenceStart property.
- getSequenceVariation() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Gets the value of the sequenceVariation property.
- getSetID() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType
-
Gets the value of the setID property.
- getSetID() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType
-
Gets the value of the setID property.
- getSingle() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout
-
Gets the value of the single property.
- getSoftware() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Gets the value of the software property.
- getSource() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the source property.
- getSource() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
Gets the value of the source property.
- getSource() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
Gets the value of the source property.
- getSource() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Add
-
Gets the value of the source property.
- getSource() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Modify
-
Gets the value of the source property.
- getSource() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Validate
-
Gets the value of the source property.
- getSourceType() - Method in class org.nmdp.ngs.gtr.jaxb.DataSourceType
-
Gets the value of the sourceType property.
- getSpecialty() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Gets the value of the specialty property.
- getSpecimen() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the specimen property.
- getSpecimenTypes() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Specimen
-
Gets the value of the specimenTypes property.
- getSpotDecodeSpec() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType
-
Gets the value of the spotDecodeSpec property.
- getSpotDecodeSpec() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType
-
Gets the value of the spotDecodeSpec property.
- getSpotDecodeSpec() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType
-
Gets the value of the spotDecodeSpec property.
- getSpotDecodeSpec() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType
-
Gets the value of the spotDecodeSpec property.
- getSpotDecodeSpec() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType
-
Gets the value of the spotDecodeSpec property.
- getSpotDecodeSpec() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType
-
Gets the value of the spotDecodeSpec property.
- getSpotDecodeSpec() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType
-
Gets the value of the spotDecodeSpec property.
- getSpotDescriptor() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Gets the value of the spotDescriptor property.
- getSpotDescriptor() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the spotDescriptor property.
- getSpotLength() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the spotLength property.
- getSpotLength() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the spotLength property.
- getSpotLength() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the spotLength property.
- getSpotLength() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the spotLength property.
- getSpotLength() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the spotLength property.
- getSpotLength() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the spotLength property.
- getSpotLength() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec
-
Gets the value of the spotLength property.
- getSsoAndSspAndSbtSanger() - Method in class org.nmdp.ngs.hml.jaxb.TypingMethod
-
Gets the value of the ssoAndSspAndSbtSanger property.
- getStandard() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType
-
Gets the value of the standard property.
- getStandard() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType
-
Gets the value of the standard property.
- getStandard() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType
-
Gets the value of the standard property.
- getStandard() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType
-
Gets the value of the standard property.
- getStandard() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType
-
Gets the value of the standard property.
- getStandard() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType
-
Gets the value of the standard property.
- getStandard() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType
-
Gets the value of the standard property.
- getStandardPrograms() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the standardPrograms property.
- getStart() - Method in class org.nmdp.ngs.feature.Locus
-
- getStart() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the start property.
- getStart() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the start property.
- getStart() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the start property.
- getState() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Gets the value of the state property.
- getStatus() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Gets the value of the status property.
- getStepIndex() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Gets the value of the stepIndex property.
- getStepIndex() - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Gets the value of the stepIndex property.
- getStepIndex() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Gets the value of the stepIndex property.
- getStepIndex() - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Gets the value of the stepIndex property.
- getStepIndex() - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Gets the value of the stepIndex property.
- getStepIndex() - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Gets the value of the stepIndex property.
- getStepIndex() - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Gets the value of the stepIndex property.
- getStrand() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the strand property.
- getStrand() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the strand property.
- getStreetAddress() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the streetAddress property.
- getStudies() - Method in class org.nmdp.ngs.sra.jaxb.study.StudySet
-
Gets the value of the studies property.
- getStudy() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the study property.
- getStudyAbstract() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the studyAbstract property.
- getStudyAttributes() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the studyAttributes property.
- getStudyAttributes() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.StudyAttributes
-
Gets the value of the studyAttributes property.
- getStudyDescription() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the studyDescription property.
- getStudyLinks() - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Gets the value of the studyLinks property.
- getStudyLinks() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.StudyLinks
-
Gets the value of the studyLinks property.
- getStudyName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the studyName property.
- getStudyPersons() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the studyPersons property.
- getStudyRef() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the studyRef property.
- getStudyRef() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the studyRef property.
- getStudyShortName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the studyShortName property.
- getStudyTitle() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the studyTitle property.
- getStudyType() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the studyType property.
- getStudyType() - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Gets the value of the studyType property.
- getSubAmplification() - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Gets the value of the subAmplification property.
- getSubmissionAttributes() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the submissionAttributes property.
- getSubmissionAttributes() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.SubmissionAttributes
-
Gets the value of the submissionAttributes property.
- getSubmissionComment() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the submissionComment property.
- getSubmissionDate() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the submissionDate property.
- getSubmissionDate() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the submissionDate property.
- getSubmissionLinks() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the submissionLinks property.
- getSubmissionLinks() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.SubmissionLinks
-
Gets the value of the submissionLinks property.
- getSubmissions() - Method in class org.nmdp.ngs.sra.jaxb.submission.SubmissionSet
-
Gets the value of the submissions property.
- getSubmitterId() - Method in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
Gets the value of the submitterId property.
- getSubmitterId() - Method in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
Gets the value of the submitterId property.
- getSubmitterId() - Method in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
Gets the value of the submitterId property.
- getSubmitterId() - Method in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
Gets the value of the submitterId property.
- getSubmitterId() - Method in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
Gets the value of the submitterId property.
- getSubmitterId() - Method in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
Gets the value of the submitterId property.
- getSubmitterId() - Method in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
Gets the value of the submitterId property.
- getSubSpecialty() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Gets the value of the subSpecialty property.
- GetSuffix(int) - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Get the suffix.
- getSuffix() - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Gets the value of the suffix property.
- getSuppress() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the suppress property.
- getSymbols() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the symbols property.
- getSymbols() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the symbols property.
- getSymbols() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the symbols property.
- getSymbols() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the symbols property.
- getSynonymSets() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Gets the value of the synonymSets property.
- getTabSize(int) - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
- getTag() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AttributeType
-
Gets the value of the tag property.
- getTag() - Method in class org.nmdp.ngs.sra.jaxb.common.AttributeType
-
Gets the value of the tag property.
- getTag() - Method in class org.nmdp.ngs.sra.jaxb.experiment.AttributeType
-
Gets the value of the tag property.
- getTag() - Method in class org.nmdp.ngs.sra.jaxb.run.AttributeType
-
Gets the value of the tag property.
- getTag() - Method in class org.nmdp.ngs.sra.jaxb.sample.AttributeType
-
Gets the value of the tag property.
- getTag() - Method in class org.nmdp.ngs.sra.jaxb.study.AttributeType
-
Gets the value of the tag property.
- getTag() - Method in class org.nmdp.ngs.sra.jaxb.submission.AttributeType
-
Gets the value of the tag property.
- getTarget() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Cancel
-
Gets the value of the target property.
- getTarget() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Hold
-
Gets the value of the target property.
- getTarget() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Release
-
Gets the value of the target property.
- getTarget() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Suppress
-
Gets the value of the target property.
- getTargetedLoci() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Gets the value of the targetedLoci property.
- getTargetPop() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Gets the value of the targetPop property.
- getTaxonId() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Gets the value of the taxonId property.
- getTerm() - Method in class org.nmdp.ngs.hml.jaxb.VariantEffect
-
Gets the value of the term property.
- getTestAddServices() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testAddServices property.
- getTestAddServicesAndMethods() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Gets the value of the testAddServicesAndMethods property.
- getTestCertifications() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations
-
Gets the value of the testCertifications property.
- getTestCodes() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testCodes property.
- getTestComments() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the testComments property.
- getTestComments() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testComments property.
- getTestContactPolicies() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testContactPolicies property.
- getTestContacts() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testContacts property.
- getTestCount() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Gets the value of the testCount property.
- getTestCount() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Gets the value of the testCount property.
- getTestCount() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the testCount property.
- getTestCountElem() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Gets the value of the testCountElem property.
- getTestDevelopment() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testDevelopment property.
- getTestExternal() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability
-
Gets the value of the testExternal property.
- getTestID() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ManufacturerTestName
-
Gets the value of the testID property.
- getTestId() - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Gets the value of the testId property.
- getTestId() - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Gets the value of the testId property.
- getTestId() - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Gets the value of the testId property.
- getTestId() - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Gets the value of the testId property.
- getTestId() - Method in class org.nmdp.ngs.hml.jaxb.TypingTestNames
-
Gets the value of the testId property.
- getTestIdSource() - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Gets the value of the testIdSource property.
- getTestIdSource() - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Gets the value of the testIdSource property.
- getTestIdSource() - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Gets the value of the testIdSource property.
- getTestIdSource() - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Gets the value of the testIdSource property.
- getTestName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the testName property.
- getTestName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testName property.
- getTestPerformedLists() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability
-
Gets the value of the testPerformedLists property.
- getTestPerformedText() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability
-
Gets the value of the testPerformedText property.
- getTestResults() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testResults property.
- getTestServices() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testServices property.
- getTestShortName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the testShortName property.
- getTestShortName() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testShortName property.
- getTestStrategy() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testStrategy property.
- getTestType() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Gets the value of the testType property.
- getTestType() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Gets the value of the testType property.
- getTestURL() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the testURL property.
- getTestURL() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the testURL property.
- getText() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.DescrSet
-
Gets the value of the text property.
- getTissue() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Gets the value of the tissue property.
- getTitle() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Gets the value of the title property.
- getTitle() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the title property.
- getTitle() - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Gets the value of the title property.
- getTitle() - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Gets the value of the title property.
- getTitle() - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Gets the value of the title property.
- getTitle() - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Gets the value of the title property.
- getTitle() - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Gets the value of the title property.
- getTitle() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Gets the value of the title property.
- getToken(int) - Method in class org.nmdp.ngs.feature.parser.FeatureParser
-
Get the specific Token.
- getTopCategories() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method
-
Gets the value of the topCategories property.
- getTopCategories() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method
-
Gets the value of the topCategories property.
- getTopCategories() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method
-
Gets the value of the topCategories property.
- getTotal() - Method in class org.nmdp.ngs.gtr.jaxb.SubmissionSummaryType
-
Gets the value of the total property.
- getTraits() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType
-
Gets the value of the traits property.
- getTraitSet() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the traitSet property.
- getType() - Method in class org.nmdp.ngs.feature.VcfFile.Info
-
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.AcronymSet
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.DescrSet
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.SynonymSet
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.StudyPerson
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.OtherName
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.LabCertificationType
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Assertion
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinVarAcc
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Title
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Gets the value of the type property.
- getType() - Method in class org.nmdp.ngs.hml.jaxb.Haploid
-
Gets the value of the type property.
- getTyping() - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Gets the value of the typing property.
- getTypingMethod() - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Gets the value of the typingMethod property.
- getTypingTestName() - Method in class org.nmdp.ngs.hml.jaxb.TypingTestNames
-
Gets the value of the typingTestName property.
- getTypingTestNames() - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Gets the value of the typingTestNames property.
- getUnencryptedChecksum() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Gets the value of the unencryptedChecksum property.
- getUnencryptedChecksum() - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Gets the value of the unencryptedChecksum property.
- getUnit() - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Gets the value of the unit property.
- getUnit() - Method in class org.nmdp.ngs.gtr.jaxb.CredentialType
-
Gets the value of the unit property.
- getUnit() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Gets the value of the unit property.
- getUnits() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AttributeType
-
Gets the value of the units property.
- getUnits() - Method in class org.nmdp.ngs.sra.jaxb.common.AttributeType
-
Gets the value of the units property.
- getUnits() - Method in class org.nmdp.ngs.sra.jaxb.experiment.AttributeType
-
Gets the value of the units property.
- getUnits() - Method in class org.nmdp.ngs.sra.jaxb.run.AttributeType
-
Gets the value of the units property.
- getUnits() - Method in class org.nmdp.ngs.sra.jaxb.sample.AttributeType
-
Gets the value of the units property.
- getUnits() - Method in class org.nmdp.ngs.sra.jaxb.study.AttributeType
-
Gets the value of the units property.
- getUnits() - Method in class org.nmdp.ngs.sra.jaxb.submission.AttributeType
-
Gets the value of the units property.
- getUri() - Method in class org.nmdp.ngs.hml.jaxb.Glstring
-
Gets the value of the uri property.
- getUri() - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Gets the value of the uri property.
- getUri() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Gets the value of the uri property.
- getUri() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Gets the value of the uri property.
- getUri() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the uri property.
- getUri() - Method in class org.nmdp.ngs.hml.jaxb.VariantEffect
-
Gets the value of the uri property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Gets the value of the url property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Specimen
-
Gets the value of the url property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the url property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabAffiliations
-
Gets the value of the url property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Gets the value of the url property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsURL
-
Gets the value of the url property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.TextURL
-
Gets the value of the url property.
- getURL() - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.analysis.UrlType
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.common.UrlType
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.experiment.UrlType
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.run.UrlType
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.sample.UrlType
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.study.UrlType
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Custom.UrlLink
-
Gets the value of the url property.
- getUrl() - Method in class org.nmdp.ngs.sra.jaxb.submission.UrlType
-
Gets the value of the url property.
- getUrlLink() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType
-
Gets the value of the urlLink property.
- getUrlLink() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType
-
Gets the value of the urlLink property.
- getUrlLink() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType
-
Gets the value of the urlLink property.
- getUrlLink() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType
-
Gets the value of the urlLink property.
- getUrlLink() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType
-
Gets the value of the urlLink property.
- getUrlLink() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType
-
Gets the value of the urlLink property.
- getUrlLink() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType
-
Gets the value of the urlLink property.
- getUrlLinks() - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Custom
-
Gets the value of the urlLinks property.
- getUrlLinks() - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Custom
-
Gets the value of the urlLinks property.
- getUrlLinks() - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Custom
-
Gets the value of the urlLinks property.
- getUrlLinks() - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Custom
-
Gets the value of the urlLinks property.
- getUrlLinks() - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Custom
-
Gets the value of the urlLinks property.
- getUrlLinks() - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Custom
-
Gets the value of the urlLinks property.
- getUrlLinks() - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Custom
-
Gets the value of the urlLinks property.
- getURLS() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitations
-
Gets the value of the urls property.
- getURLS() - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsList
-
Gets the value of the urls property.
- getURLS() - Method in class org.nmdp.ngs.gtr.jaxb.URL
-
Gets the value of the urls property.
- getUsage() - Method in class org.nmdp.ngs.xjc.plugins.SentenceCasePlugin
-
- getUuids() - Method in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
Gets the value of the uuids property.
- getUuids() - Method in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
Gets the value of the uuids property.
- getUuids() - Method in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
Gets the value of the uuids property.
- getUuids() - Method in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
Gets the value of the uuids property.
- getUuids() - Method in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
Gets the value of the uuids property.
- getUuids() - Method in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
Gets the value of the uuids property.
- getUuids() - Method in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
Gets the value of the uuids property.
- getValidate() - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Gets the value of the validate property.
- getValue() - Method in class org.nmdp.ngs.feature.parser.Token
-
An optional attribute value of the Token.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.Country
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.State
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.AcronymSet
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.DescrSet
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.SynonymSet
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.FileType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category.Methodology
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.StudyPerson
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility.Type
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Inheritance
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Mechanism
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ManufacturerTestName
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category.Methodology
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.OtherName
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestAddService
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.ReContact
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS.RecruitFamily
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestService
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory.Category
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Title
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabServices
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.hml.jaxb.Allele
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.hml.jaxb.Glstring
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.hml.jaxb.Property
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.hml.jaxb.Sequence
-
Nucleotide bases representing sequence ambiguity.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.analysis.AttributeType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.analysis.NameType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.common.AttributeType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.common.NameType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.experiment.AttributeType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.experiment.NameType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType.ReadLabel
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.run.AttributeType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.run.NameType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.sample.AttributeType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.sample.NameType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.study.AttributeType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.study.NameType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.submission.AttributeType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.submission.NameType
-
Gets the value of the value property.
- getValue() - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Gets the value of the value property.
- getVariant() - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Gets the value of the variant property.
- getVariantEffect() - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Gets the value of the variantEffect property.
- getVersion() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinVarAcc
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Gets the value of the version property.
- getVersion() - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Gets the value of the version property.
- getVUS() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Gets the value of the vus property.
- getXrefLink() - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType
-
Gets the value of the xrefLink property.
- getXrefLink() - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType
-
Gets the value of the xrefLink property.
- getXrefLink() - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType
-
Gets the value of the xrefLink property.
- getXrefLink() - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType
-
Gets the value of the xrefLink property.
- getXrefLink() - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType
-
Gets the value of the xrefLink property.
- getXrefLink() - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType
-
Gets the value of the xrefLink property.
- getXrefLink() - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType
-
Gets the value of the xrefLink property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Inheritance
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Mechanism
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Assertion
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinicalSignificance
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.DescrSet
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Gets the value of the xReves property.
- getXReves() - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Gets the value of the xReves property.
- global(List<Sequence>, List<Sequence>, GapPenalties) - Method in class org.nmdp.ngs.align.BiojavaPairwiseAlignment
-
- global(Sequence, Sequence) - Method in interface org.nmdp.ngs.align.PairwiseAlignment
-
Return the alignment pairs from global alignment of the query and subject DNA sequences
with the default global alignment gap penalties.
- global(Sequence, Sequence, GapPenalties) - Method in interface org.nmdp.ngs.align.PairwiseAlignment
-
Return the alignment pairs from global alignment of the query and subject DNA sequences
with the specified gap penalties.
- global(Sequence, List<Sequence>) - Method in interface org.nmdp.ngs.align.PairwiseAlignment
-
Return the alignment pairs from global alignment of the query and subject DNA sequences
with the default global alignment gap penalties.
- global(Sequence, List<Sequence>, GapPenalties) - Method in interface org.nmdp.ngs.align.PairwiseAlignment
-
Return the alignment pairs from global alignment of the query and subject DNA sequences
with the specified gap penalties.
- global(List<Sequence>, List<Sequence>) - Method in interface org.nmdp.ngs.align.PairwiseAlignment
-
Return the alignment pairs from global alignment of the query and subject DNA sequences
with the default global alignment gap penalties.
- global(List<Sequence>, List<Sequence>, GapPenalties) - Method in interface org.nmdp.ngs.align.PairwiseAlignment
-
Return the alignment pairs from global alignment of the query and subject DNA sequences
with the specified gap penalties.
- global(List<Sequence>, List<Sequence>, GapPenalties) - Method in class org.nmdp.ngs.align.ParallelBiojavaPairwiseAlignment
-
- Glstring - Class in org.nmdp.ngs.hml.jaxb
-
Specifies a resource in Genotype List String (GL String) format for the
interpretation of a typing result, or a URI identifying a resource in
GL String format.
- Glstring() - Constructor for class org.nmdp.ngs.hml.jaxb.Glstring
-
- greater() - Method in enum org.nmdp.ngs.fca.Partial.Order
-
- greaterOrEqual() - Method in enum org.nmdp.ngs.fca.Partial.Order
-
- greatestLowerBound(List) - Method in class org.nmdp.ngs.fca.ConceptLattice
-
- Gssp - Class in org.nmdp.ngs.hml.jaxb
-
Describes the Group Specific Sequencing Primer used.
- Gssp() - Constructor for class org.nmdp.ngs.hml.jaxb.Gssp
-
- gssp - Variable in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
- gte() - Method in enum org.nmdp.ngs.fca.Partial.Order
-
- gtrAccession - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
- gtrAccession - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
- gtrLab - Variable in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
- gtrLabDatas - Variable in class org.nmdp.ngs.gtr.jaxb.GTRPublicData
-
- gtrLabResearchTests - Variable in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
- GTRLabResearchTestType - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for GTRLabResearchTestType complex type.
- GTRLabResearchTestType() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
- GTRLabResearchTestType.Method - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.Method() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method
-
- GTRLabResearchTestType.Method.TopCategory - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.Method.TopCategory() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory
-
- GTRLabResearchTestType.Method.TopCategory.Category - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.Method.TopCategory.Category() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category
-
- GTRLabResearchTestType.Method.TopCategory.Category.Methodology - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.Method.TopCategory.Category.Methodology() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category.Methodology
-
- GTRLabResearchTestType.MethodAdd - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.MethodAdd() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd
-
- GTRLabResearchTestType.MethodAdd.Exons - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.MethodAdd.Exons() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
- GTRLabResearchTestType.Participation - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.Participation() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
- GTRLabResearchTestType.Study - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.Study() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
- GTRLabResearchTestType.StudyPerson - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabResearchTestType.StudyPerson() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.StudyPerson
-
- gtrLabTests - Variable in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
- GTRLabTestType - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for GTRLabTestType complex type.
- GTRLabTestType() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
- GTRLabTestType.Availability - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Availability() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability
-
- GTRLabTestType.Availability.TestExternal - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Availability.TestExternal() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability.TestExternal
-
- GTRLabTestType.ClinicalUtility - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.ClinicalUtility() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility
-
- GTRLabTestType.ClinicalUtility.Type - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.ClinicalUtility.Type() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility.Type
-
- GTRLabTestType.Indications - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Indications() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
- GTRLabTestType.Indications.Inheritance - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Indications.Inheritance() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Inheritance
-
- GTRLabTestType.Indications.Mechanism - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Indications.Mechanism() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Mechanism
-
- GTRLabTestType.ManufacturerTestName - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.ManufacturerTestName() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ManufacturerTestName
-
- GTRLabTestType.Method - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Method() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method
-
- GTRLabTestType.Method.TopCategory - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Method.TopCategory() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory
-
- GTRLabTestType.Method.TopCategory.Category - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Method.TopCategory.Category() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category
-
- GTRLabTestType.Method.TopCategory.Category.Methodology - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Method.TopCategory.Category.Methodology() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category.Methodology
-
- GTRLabTestType.MethodAdd - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.MethodAdd() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd
-
- GTRLabTestType.MethodAdd.Exons - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.MethodAdd.Exons() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
- GTRLabTestType.OtherName - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.OtherName() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.OtherName
-
- GTRLabTestType.QualityControl - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.QualityControl() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
- GTRLabTestType.Regulations - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Regulations() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations
-
- GTRLabTestType.Regulations.FDARegulatoryClearance - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Regulations.FDARegulatoryClearance() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
- GTRLabTestType.Regulations.TestCertification - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Regulations.TestCertification() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
- GTRLabTestType.Specimen - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.Specimen() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Specimen
-
- GTRLabTestType.TestAddService - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.TestAddService() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestAddService
-
- GTRLabTestType.TestResults - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.TestResults() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
- GTRLabTestType.TestResults.ReContact - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.TestResults.ReContact() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.ReContact
-
- GTRLabTestType.TestResults.Research - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.TestResults.Research() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.Research
-
- GTRLabTestType.TestResults.VUS - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.TestResults.VUS() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
- GTRLabTestType.TestResults.VUS.RecruitFamily - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.TestResults.VUS.RecruitFamily() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS.RecruitFamily
-
- GTRLabTestType.TestService - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRLabTestType.TestService() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestService
-
- GTROrgType - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for GTROrgType complex type.
- GTROrgType() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
- GTROrgType.DiseaseTesting - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTROrgType.DiseaseTesting() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
- GTROrgType.DiseaseTesting.Method - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTROrgType.DiseaseTesting.Method() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method
-
- GTROrgType.DiseaseTesting.Method.TopCategory - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTROrgType.DiseaseTesting.Method.TopCategory() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory
-
- GTROrgType.DiseaseTesting.Method.TopCategory.Category - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTROrgType.DiseaseTesting.Method.TopCategory.Category() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory.Category
-
- GTROrgType.GeneTesting - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTROrgType.GeneTesting() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
- GTRPublicData - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for GTRPublicDataType complex type.
- GTRPublicData() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRPublicData
-
- GTRPublicData.GTRLabData - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRPublicData.GTRLabData() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
- GTRPublicData.GTRLabData.GTRLabResearchTest - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRPublicData.GTRLabData.GTRLabResearchTest() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
- GTRPublicData.GTRLabData.GTRLabTest - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for anonymous complex type.
- GTRPublicData.GTRLabData.GTRLabTest() - Constructor for class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
- GtrReader - Class in org.nmdp.ngs.gtr
-
Reader for GTR public data xml.
- GtrWriter - Class in org.nmdp.ngs.gtr
-
Writer for GTR public data xml.
- Sample - Class in org.nmdp.ngs.feature
-
- Sample(String, Annotation) - Constructor for class org.nmdp.ngs.feature.Sample
-
- sample - Variable in class org.nmdp.ngs.hml.jaxb.Hml
-
- Sample - Class in org.nmdp.ngs.hml.jaxb
-
Encloses the genotyping data pertaining to a particular sample.
- Sample() - Constructor for class org.nmdp.ngs.hml.jaxb.Sample
-
- Sample - Class in org.nmdp.ngs.sra.jaxb.sample
-
A Sample defines an isolate of sequenceable material upon which
sequencing experiments can be based.
- Sample() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.Sample
-
- sample(VcfSample) - Method in class org.nmdp.ngs.variant.vcf.VcfStreamAdapter
-
- sample(VcfSample) - Method in interface org.nmdp.ngs.variant.vcf.VcfStreamListener
-
Notify this listener of a VCF sample.
- Sample.SampleAttributes - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- Sample.SampleAttributes() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleAttributes
-
- Sample.SampleLinks - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- Sample.SampleLinks() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleLinks
-
- Sample.SampleName - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- Sample.SampleName() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
- sampleAttributes - Variable in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
- sampleAttributes - Variable in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleAttributes
-
- sampleDemuxDirective - Variable in class org.nmdp.ngs.sra.jaxb.analysis.SequencingDirectivesType
-
- sampleDemuxDirective - Variable in class org.nmdp.ngs.sra.jaxb.common.SequencingDirectivesType
-
- sampleDemuxDirective - Variable in class org.nmdp.ngs.sra.jaxb.experiment.SequencingDirectivesType
-
- sampleDemuxDirective - Variable in class org.nmdp.ngs.sra.jaxb.run.SequencingDirectivesType
-
- sampleDemuxDirective - Variable in class org.nmdp.ngs.sra.jaxb.sample.SequencingDirectivesType
-
- sampleDemuxDirective - Variable in class org.nmdp.ngs.sra.jaxb.study.SequencingDirectivesType
-
- sampleDemuxDirective - Variable in class org.nmdp.ngs.sra.jaxb.submission.SequencingDirectivesType
-
- sampleDescriptor - Variable in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
- SampleDescriptorType - Class in org.nmdp.ngs.sra.jaxb.experiment
-
The SAMPLE_DESCRIPTOR specifies how to decode the individual reads
of interest from the monolithic spot sequence.
- SampleDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
- SampleDescriptorType.Pool - Class in org.nmdp.ngs.sra.jaxb.experiment
-
Java class for anonymous complex type.
- SampleDescriptorType.Pool() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType.Pool
-
- sampleLinks - Variable in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
- sampleLinks - Variable in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleLinks
-
- sampleName - Variable in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
- sampleNegReport - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
- samplePhenotype - Variable in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
- samplePosReport - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
- sampleReves - Variable in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
- samples - Variable in class org.nmdp.ngs.sra.jaxb.sample.SampleSet
-
- samples(String...) - Method in class org.nmdp.ngs.variant.vcf.VcfParseAdapter
-
- samples(String...) - Method in interface org.nmdp.ngs.variant.vcf.VcfParseListener
-
Notify this parse listener of sample strings.
- samples(Readable) - Static method in class org.nmdp.ngs.variant.vcf.VcfReader
-
Read zero or more VCF samples from the specified readable.
- samples(File) - Static method in class org.nmdp.ngs.variant.vcf.VcfReader
-
Read zero or more VCF samples from the specified file.
- samples(URL) - Static method in class org.nmdp.ngs.variant.vcf.VcfReader
-
Read zero or more VCF samples from the specified URL.
- samples(InputStream) - Static method in class org.nmdp.ngs.variant.vcf.VcfReader
-
Read zero or more VCF samples from the specified input stream.
- samples(Readable) - Static method in class org.nmdp.ngs.variant.vcf.VcfSampleParser
-
Read zero or more VCF samples from the specified readable.
- SampleSet - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for SampleSetType complex type.
- SampleSet() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SampleSet
-
- sampleVUSReport - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
- SbtNgs - Class in org.nmdp.ngs.hml.jaxb
-
Describes an NGS (next-generation sequencing) event that was performed.
- SbtNgs() - Constructor for class org.nmdp.ngs.hml.jaxb.SbtNgs
-
- SbtSanger - Class in org.nmdp.ngs.hml.jaxb
-
Describes an SBT (sequence-based typing) that was performed using a
Sanger technique.
- SbtSanger() - Constructor for class org.nmdp.ngs.hml.jaxb.SbtSanger
-
- schema - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Add
-
- schema - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Modify
-
- schema - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Validate
-
- scientificName - Variable in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
- score() - Method in class org.nmdp.ngs.align.BedRecord
-
Return the score for this BED record, if any
- ScoreFunction - Interface in org.nmdp.ngs.reads.quality
-
Positional score function.
- ScoreFunctionQualityStrategy - Class in org.nmdp.ngs.reads.quality
-
Quality strategy which samples from a single real distribution and multiplies
by a positional score function.
- ScoreFunctionQualityStrategy(RealDistribution, ScoreFunction) - Constructor for class org.nmdp.ngs.reads.quality.ScoreFunctionQualityStrategy
-
Create a new score function quality strategy.
- ScoreFunctions - Class in org.nmdp.ngs.reads.quality
-
Score functions.
- scores - Variable in class org.nmdp.ngs.hml.jaxb.Sso
-
- scores - Variable in class org.nmdp.ngs.hml.jaxb.Ssp
-
- secondaryIds - Variable in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
- secondaryIds - Variable in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
- secondaryIds - Variable in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
- secondaryIds - Variable in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
- secondaryIds - Variable in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
- secondaryIds - Variable in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
- secondaryIds - Variable in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
- sectionName - Variable in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
- sectionName - Variable in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
- sectionName - Variable in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
- sectionName - Variable in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
- sectionName - Variable in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
- sectionName - Variable in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
- sectionName - Variable in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
- SEMICOLON - Static variable in interface org.nmdp.ngs.feature.parser.FeatureParserConstants
-
RegularExpression Id.
- SentenceCasePlugin - Class in org.nmdp.ngs.xjc.plugins
-
Sentence case XJC plugin.
- SentenceCasePlugin() - Constructor for class org.nmdp.ngs.xjc.plugins.SentenceCasePlugin
-
- sequence - Variable in class org.nmdp.ngs.feature.Allele
-
Sequence of acceptable characters (alphabet) at the corresponding genomic location.
- sequence - Variable in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
- Sequence - Class in org.nmdp.ngs.hml.jaxb
-
The DNA alphabet consists of primary nucleotides (A, C, G, T).
- Sequence() - Constructor for class org.nmdp.ngs.hml.jaxb.Sequence
-
- sequenceAnnotation - Variable in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
- sequenceAssembly - Variable in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
- sequenceEnd - Variable in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
- sequenceQuality - Variable in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
- SequenceQuality - Class in org.nmdp.ngs.hml.jaxb
-
Java class for anonymous complex type.
- SequenceQuality() - Constructor for class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
- sequences - Variable in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType
-
- sequences - Variable in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType
-
- sequences - Variable in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType
-
- sequences - Variable in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType
-
- sequences - Variable in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType
-
- sequences - Variable in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType
-
- sequences - Variable in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType
-
- sequenceStart - Variable in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
- sequenceVariation - Variable in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
- SequencingDirectivesType - Class in org.nmdp.ngs.sra.jaxb.analysis
-
Java class for SequencingDirectivesType complex type.
- SequencingDirectivesType() - Constructor for class org.nmdp.ngs.sra.jaxb.analysis.SequencingDirectivesType
-
- SequencingDirectivesType - Class in org.nmdp.ngs.sra.jaxb.common
-
Java class for SequencingDirectivesType complex type.
- SequencingDirectivesType() - Constructor for class org.nmdp.ngs.sra.jaxb.common.SequencingDirectivesType
-
- SequencingDirectivesType - Class in org.nmdp.ngs.sra.jaxb.experiment
-
Java class for SequencingDirectivesType complex type.
- SequencingDirectivesType() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SequencingDirectivesType
-
- SequencingDirectivesType - Class in org.nmdp.ngs.sra.jaxb.run
-
Java class for SequencingDirectivesType complex type.
- SequencingDirectivesType() - Constructor for class org.nmdp.ngs.sra.jaxb.run.SequencingDirectivesType
-
- SequencingDirectivesType - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for SequencingDirectivesType complex type.
- SequencingDirectivesType() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SequencingDirectivesType
-
- SequencingDirectivesType - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for SequencingDirectivesType complex type.
- SequencingDirectivesType() - Constructor for class org.nmdp.ngs.sra.jaxb.study.SequencingDirectivesType
-
- SequencingDirectivesType - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for SequencingDirectivesType complex type.
- SequencingDirectivesType() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SequencingDirectivesType
-
- setAbiSolid(PlatformType.AbiSolid) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the abiSolid property.
- setAbiSolid(PlatformType.AbiSolid) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the abiSolid property.
- setAbiSolid(PlatformType.AbiSolid) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the abiSolid property.
- setAbiSolid(PlatformType.AbiSolid) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the abiSolid property.
- setAbiSolid(PlatformType.AbiSolid) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the abiSolid property.
- setAbiSolid(PlatformType.AbiSolid) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the abiSolid property.
- setAbiSolid(PlatformType.AbiSolid) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the abiSolid property.
- setAcc(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinVarAcc
-
Sets the value of the acc property.
- setAccession(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Standard
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType.Sequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Standard
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType.Sequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Standard
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType.Sequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Standard
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType.Sequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Standard
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType.Sequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Standard
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType.Sequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Standard
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType.Sequence
-
Sets the value of the accession property.
- setAccession(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the accession property.
- setAcronymSet(ClinvarPublicSetType.AcronymSet) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Sets the value of the acronymSet property.
- setActions(Submission.Actions) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the actions property.
- setAdapterTrimmed(boolean) - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Sets the value of the adapterTrimmed property.
- setAdd(Submission.Actions.Action.Add) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the add property.
- setAfterTesting(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.Research
-
Sets the value of the afterTesting property.
- setAims(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the aims property.
- setAlias(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the alias property.
- setAlias(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Sets the value of the alias property.
- setAlias(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the alias property.
- setAlias(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the alias property.
- setAlias(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the alias property.
- setAlias(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the alias property.
- setAlias(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the alias property.
- setAlleleDb(String) - Method in class org.nmdp.ngs.hml.jaxb.AlleleAssignment
-
Sets the value of the alleleDb property.
- setAlleleVersion(String) - Method in class org.nmdp.ngs.hml.jaxb.AlleleAssignment
-
Sets the value of the alleleVersion property.
- setAlternateBases(String) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the alternateBases property.
- setAmplification(Amplification) - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Sets the value of the amplification property.
- setAnalysisAttributes(Analysis.AnalysisAttributes) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the analysisAttributes property.
- setAnalysisCenter(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the analysisCenter property.
- setAnalysisDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the analysisDate property.
- setAnalysisLinks(Analysis.AnalysisLinks) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the analysisLinks property.
- setAnalysisType(Analysis.AnalysisType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the analysisType property.
- setAnalyticalValidity(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the analyticalValidity property.
- setAnnualPastDue(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the annualPastDue property.
- setAnonymizedName(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Sets the value of the anonymizedName property.
- setApplicationNumber(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Sets the value of the applicationNumber property.
- setApprovalDocuments(URL) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Sets the value of the approvalDocuments property.
- setApprovalDocumentsFile(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Sets the value of the approvalDocumentsFile property.
- setAsciiOffset(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the asciiOffset property.
- setAssayLimitations(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the assayLimitations property.
- setAssembly(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Sets the value of the assembly property.
- setAssembly(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Sets the value of the assembly property.
- setAssembly(ReferenceAssemblyType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType
-
Sets the value of the assembly property.
- setAssembly(ReferenceAssemblyType) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType
-
Sets the value of the assembly property.
- setAssembly(ReferenceAssemblyType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType
-
Sets the value of the assembly property.
- setAssembly(ReferenceAssemblyType) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType
-
Sets the value of the assembly property.
- setAssembly(ReferenceAssemblyType) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType
-
Sets the value of the assembly property.
- setAssembly(ReferenceAssemblyType) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType
-
Sets the value of the assembly property.
- setAssembly(ReferenceAssemblyType) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType
-
Sets the value of the assembly property.
- setAssertion(MeasureTraitType.Assertion) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the assertion property.
- setAttribute(String) - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Sets the value of the attribute property.
- setAuthorizedEnter(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability.TestExternal
-
Sets the value of the authorizedEnter property.
- setAvailability(GTRLabTestType.Availability) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the availability property.
- setAvailability(String) - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Sets the value of the availability property.
- setAvailability(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Sets the value of the availability property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the baseCoord property.
- setBaseCoord(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the baseCoord property.
- setBoard(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Sets the value of the board property.
- setBrokerName(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the brokerName property.
- setBrokerName(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Sets the value of the brokerName property.
- setBrokerName(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the brokerName property.
- setBrokerName(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the brokerName property.
- setBrokerName(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the brokerName property.
- setBrokerName(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the brokerName property.
- setBrokerName(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the brokerName property.
- setCancel(Submission.Actions.Action.Cancel) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the cancel property.
- setCapillary(PlatformType.Capillary) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the capillary property.
- setCapillary(PlatformType.Capillary) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the capillary property.
- setCapillary(PlatformType.Capillary) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the capillary property.
- setCapillary(PlatformType.Capillary) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the capillary property.
- setCapillary(PlatformType.Capillary) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the capillary property.
- setCapillary(PlatformType.Capillary) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the capillary property.
- setCapillary(PlatformType.Capillary) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the capillary property.
- setCategory(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Sets the value of the category property.
- setCenterCode(String) - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Sets the value of the centerCode property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the centerName property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Sets the value of the centerName property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the centerName property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the centerName property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the centerName property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the centerName property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the centerName property.
- setCenterName(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the centerName property.
- setCenterProjectName(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the centerProjectName property.
- setCertStatus(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Sets the value of the certStatus property.
- setChecklist(AnalysisFileType.Checklist) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Sets the value of the checklist property.
- setChecksum(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Sets the value of the checksum property.
- setChecksum(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the checksum property.
- setChecksumMethod(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Sets the value of the checksumMethod property.
- setChecksumMethod(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the checksumMethod property.
- setChr(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Sets the value of the chr property.
- setChr(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Sets the value of the chr property.
- setCity(String) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the city property.
- setClinicalSignificance(MeasureTraitType.ClinicalSignificance) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the clinicalSignificance property.
- setClinicalTrialsID(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the clinicalTrialsID property.
- setClinicalValidity(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Sets the value of the clinicalValidity property.
- setClinVarAcc(MeasureTraitType.ClinVarAcc) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the clinVarAcc property.
- setClinVarSet(ClinvarPublicSetType) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the clinVarSet property.
- setClinVarSet(ClinvarPublicSetType) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the clinVarSet property.
- setClinVarSourceName(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Sets the value of the clinVarSourceName property.
- setClinVarSubmission(SubmissionSummaryType) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the clinVarSubmission property.
- setCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category
-
Sets the value of the code property.
- setCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category
-
Sets the value of the code property.
- setCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory.Category
-
Sets the value of the code property.
- setCollectionMethod(String) - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Sets the value of the collectionMethod property.
- setComment(String) - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Sets the value of the comment property.
- setComment(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestAddService
-
Sets the value of the comment property.
- setComment(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestService
-
Sets the value of the comment property.
- setComment(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabServices
-
Sets the value of the comment property.
- setCommonName(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Sets the value of the commonName property.
- setCompleteGenomics(PlatformType.CompleteGenomics) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the completeGenomics property.
- setCompleteGenomics(PlatformType.CompleteGenomics) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the completeGenomics property.
- setCompleteGenomics(PlatformType.CompleteGenomics) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the completeGenomics property.
- setCompleteGenomics(PlatformType.CompleteGenomics) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the completeGenomics property.
- setCompleteGenomics(PlatformType.CompleteGenomics) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the completeGenomics property.
- setCompleteGenomics(PlatformType.CompleteGenomics) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the completeGenomics property.
- setCompleteGenomics(PlatformType.CompleteGenomics) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the completeGenomics property.
- setConfirmation(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd
-
Sets the value of the confirmation property.
- setConfirmation(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd
-
Sets the value of the confirmation property.
- setConsentForm(FileType) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Sets the value of the consentForm property.
- setContactPolicy(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the contactPolicy property.
- setContacts(Submission.Contacts) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the contacts property.
- setContinuity(Boolean) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the continuity property.
- setCountry(AddressType.Country) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the country property.
- setCoverage(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Sets the value of the coverage property.
- setCUI(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.DescrSet
-
Sets the value of the cui property.
- setCUI(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Sets the value of the cui property.
- setCUI(String) - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Sets the value of the cui property.
- setCurated(Boolean) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Sets the value of the curated property.
- setCustom(ReferenceAssemblyType.Custom) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType
-
Sets the value of the custom property.
- setCustom(ReferenceAssemblyType.Custom) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType
-
Sets the value of the custom property.
- setCustom(ReferenceAssemblyType.Custom) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType
-
Sets the value of the custom property.
- setCustom(ReferenceAssemblyType.Custom) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType
-
Sets the value of the custom property.
- setCustom(ReferenceAssemblyType.Custom) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType
-
Sets the value of the custom property.
- setCustom(ReferenceAssemblyType.Custom) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType
-
Sets the value of the custom property.
- setCustom(ReferenceAssemblyType.Custom) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType
-
Sets the value of the custom property.
- setDataBlock(Run.DataBlock) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the dataBlock property.
- setDataSource(String) - Method in class org.nmdp.ngs.gtr.jaxb.DataSourceType
-
Sets the value of the dataSource property.
- setDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.hml.jaxb.AlleleAssignment
-
Sets the value of the date property.
- setDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequence
-
Sets the value of the date property.
- setDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Sets the value of the date property.
- setDateCreated(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the dateCreated property.
- setDateLastUpdated(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the dateLastUpdated property.
- setDB(String) - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Sets the value of the db property.
- setDB(String) - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.XRefType
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.common.XRefType
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.XRefType
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.run.XRefType
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.XRefType
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.study.XRefType
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Sets the value of the db property.
- setDb(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.XRefType
-
Sets the value of the db property.
- setDebugStream(PrintStream) - Method in class org.nmdp.ngs.feature.parser.FeatureParserTokenManager
-
Set debug output.
- setDefaultLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the defaultLength property.
- setDefaultLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the defaultLength property.
- setDefaultLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the defaultLength property.
- setDefaultLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the defaultLength property.
- setDefaultLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the defaultLength property.
- setDefaultLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the defaultLength property.
- setDefaultLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
Sets the value of the defaultLength property.
- setDefaultMember(PoolMemberType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType.Pool
-
Sets the value of the defaultMember property.
- setDepartment(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Sets the value of the department property.
- setDescription(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.gtr.jaxb.TextCitations
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsList
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsURL
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.gtr.jaxb.TextURL
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Custom
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Custom
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.TargetedLoci.Locus
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Custom
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Custom
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Custom
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Custom
-
Sets the value of the description property.
- setDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Custom
-
Sets the value of the description property.
- setDescriptor(Study.Descriptor) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the descriptor property.
- setDesign(LibraryType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the design property.
- setDesignDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Sets the value of the designDescription property.
- setDirectives(SequencingDirectivesType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ProcessingType
-
Sets the value of the directives property.
- setDirectives(SequencingDirectivesType) - Method in class org.nmdp.ngs.sra.jaxb.common.ProcessingType
-
Sets the value of the directives property.
- setDirectives(SequencingDirectivesType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ProcessingType
-
Sets the value of the directives property.
- setDirectives(SequencingDirectivesType) - Method in class org.nmdp.ngs.sra.jaxb.run.ProcessingType
-
Sets the value of the directives property.
- setDirectives(SequencingDirectivesType) - Method in class org.nmdp.ngs.sra.jaxb.sample.ProcessingType
-
Sets the value of the directives property.
- setDirectives(SequencingDirectivesType) - Method in class org.nmdp.ngs.sra.jaxb.study.ProcessingType
-
Sets the value of the directives property.
- setDirectives(SequencingDirectivesType) - Method in class org.nmdp.ngs.sra.jaxb.submission.ProcessingType
-
Sets the value of the directives property.
- setDisplay(boolean) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Credential
-
Sets the value of the display property.
- setDisplay(boolean) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Degree
-
Sets the value of the display property.
- setDisplayName(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Sets the value of the displayName property.
- setDisplayWeb(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the displayWeb property.
- SetElementComplexType - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for SetElementComplexType complex type.
- SetElementComplexType() - Constructor for class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
- SetElementType - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for SetElementType complex type.
- SetElementType() - Constructor for class org.nmdp.ngs.gtr.jaxb.SetElementType
-
- setEligibility(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Sets the value of the eligibility property.
- setEmail(String) - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Sets the value of the email property.
- setEnd(Long) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the end property.
- setEnd(Long) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the end property.
- setEnd(long) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the end property.
- setEntrezLink(LinkType.EntrezLink) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType
-
Sets the value of the entrezLink property.
- setEntrezLink(LinkType.EntrezLink) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType
-
Sets the value of the entrezLink property.
- setEntrezLink(LinkType.EntrezLink) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType
-
Sets the value of the entrezLink property.
- setEntrezLink(LinkType.EntrezLink) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType
-
Sets the value of the entrezLink property.
- setEntrezLink(LinkType.EntrezLink) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType
-
Sets the value of the entrezLink property.
- setEntrezLink(LinkType.EntrezLink) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType
-
Sets the value of the entrezLink property.
- setEntrezLink(LinkType.EntrezLink) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType
-
Sets the value of the entrezLink property.
- setEntrezUID(Integer) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Sets the value of the entrezUID property.
- setEntrezUID(Integer) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Sets the value of the entrezUID property.
- setEthnicity(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Sets the value of the ethnicity property.
- setExistingStudyType(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.StudyType
-
Sets the value of the existingStudyType property.
- setExpectedBasecallTable(SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the expectedBasecallTable property.
- setExpectedBasecallTable(SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the expectedBasecallTable property.
- setExpectedBasecallTable(SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the expectedBasecallTable property.
- setExpectedBasecallTable(SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the expectedBasecallTable property.
- setExpectedBasecallTable(SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the expectedBasecallTable property.
- setExpectedBasecallTable(SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the expectedBasecallTable property.
- setExpectedBasecallTable(SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the expectedBasecallTable property.
- setExpectedCopyNumber(Integer) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the expectedCopyNumber property.
- setExperimentAttributes(Experiment.ExperimentAttributes) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the experimentAttributes property.
- setExperimentLinks(Experiment.ExperimentLinks) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the experimentLinks property.
- setExperimentRef(Run.ExperimentRef) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the experimentRef property.
- setExpirationDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Sets the value of the expirationDate property.
- setExpirationDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Sets the value of the expirationDate property.
- setExpirationDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Sets the value of the expirationDate property.
- setExtension(String) - Method in class org.nmdp.ngs.hml.jaxb.Hmlid
-
Sets the value of the extension property.
- setFax(String) - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Sets the value of the fax property.
- setFilename(String) - Method in class org.nmdp.ngs.gtr.jaxb.FileType
-
Sets the value of the filename property.
- setFilename(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Sets the value of the filename property.
- setFilename(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the filename property.
- setFiles(Analysis.Files) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the files property.
- setFiles(Run.DataBlock.Files) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock
-
Sets the value of the files property.
- setFiletype(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Sets the value of the filetype property.
- setFiletype(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the filetype property.
- setFilter(String) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the filter property.
- setFirst(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Sets the value of the first property.
- setFollowsReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the followsReadIndex property.
- setFollowsReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the followsReadIndex property.
- setFollowsReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the followsReadIndex property.
- setFollowsReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the followsReadIndex property.
- setFollowsReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the followsReadIndex property.
- setFollowsReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the followsReadIndex property.
- setFollowsReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the followsReadIndex property.
- setFormat(String) - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Sets the value of the format property.
- setGeneCount(int) - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Sets the value of the geneCount property.
- setGeneFamily(String) - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Sets the value of the geneFamily property.
- setGeneID(int) - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Sets the value of the geneID property.
- setGeneID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
Sets the value of the geneID property.
- setGeneID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
Sets the value of the geneID property.
- setGeneID(int) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Sets the value of the geneID property.
- setGeneSymbol(String) - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Sets the value of the geneSymbol property.
- setGeneSymbol(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Sets the value of the geneSymbol property.
- setGeneticCounselingReqPost(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the geneticCounselingReqPost property.
- setGeneticCounselingReqPre(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the geneticCounselingReqPre property.
- setGTRAccession(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the gtrAccession property.
- setGTRAccession(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the gtrAccession property.
- setGTRLab(GTROrgType) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData
-
Sets the value of the gtrLab property.
- setHasFdaApproved(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Sets the value of the hasFdaApproved property.
- setHelicos(PlatformType.Helicos) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the helicos property.
- setHelicos(PlatformType.Helicos) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the helicos property.
- setHelicos(PlatformType.Helicos) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the helicos property.
- setHelicos(PlatformType.Helicos) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the helicos property.
- setHelicos(PlatformType.Helicos) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the helicos property.
- setHelicos(PlatformType.Helicos) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the helicos property.
- setHelicos(PlatformType.Helicos) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the helicos property.
- setHgvs(String) - Method in class org.nmdp.ngs.hml.jaxb.VariantEffect
-
Sets the value of the hgvs property.
- setHmlid(Hmlid) - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Sets the value of the hmlid property.
- setHold(Submission.Actions.Action.Hold) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the hold property.
- setHoldUntilDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Hold
-
Sets the value of the holdUntilDate property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.Country
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.State
-
Sets the value of the id property.
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Sets the value of the id property.
- setID(String) - Method in class org.nmdp.ngs.gtr.jaxb.DataSourceType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the id property.
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Sets the value of the id property.
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Sets the value of the id property.
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Sets the value of the id property.
- setID - Variable in class org.nmdp.ngs.gtr.jaxb.MeasureSetType
-
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType
-
Sets the value of the id property.
- setID(Integer) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Assertion
-
Sets the value of the id property.
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Sets the value of the id property.
- setID(String) - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Sets the value of the id property.
- setID - Variable in class org.nmdp.ngs.gtr.jaxb.TraitSetType
-
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType
-
Sets the value of the id property.
- setID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Sets the value of the id property.
- setID(String) - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.hml.jaxb.Sample
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.XRefType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.sra.jaxb.common.XRefType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.XRefType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.sra.jaxb.run.XRefType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.XRefType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.sra.jaxb.study.XRefType
-
Sets the value of the id property.
- setId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Sets the value of the id property.
- setId(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.XRefType
-
Sets the value of the id property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType.Checklist
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the identifiers property.
- setIdentifiers(IdentifierType) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the identifiers property.
- setIllumina(PlatformType.Illumina) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the illumina property.
- setIllumina(PlatformType.Illumina) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the illumina property.
- setIllumina(PlatformType.Illumina) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the illumina property.
- setIllumina(PlatformType.Illumina) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the illumina property.
- setIllumina(PlatformType.Illumina) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the illumina property.
- setIllumina(PlatformType.Illumina) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the illumina property.
- setIllumina(PlatformType.Illumina) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the illumina property.
- setImputation(Boolean) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceVariation
-
Sets the value of the imputation property.
- setIndications(GTRLabTestType.Indications) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the indications property.
- setIndividualName(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Sets the value of the individualName property.
- setInformedConsentReq(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the informedConsentReq property.
- setInformOnError(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts.Contact
-
Sets the value of the informOnError property.
- setInformOnStatus(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts.Contact
-
Sets the value of the informOnStatus property.
- setInstitution(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Sets the value of the institution property.
- setInstitution(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the institution property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.AbiSolid
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Capillary
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.CompleteGenomics
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Helicos
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Illumina
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.IonTorrent
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.Ls454
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType.PacbioSmrt
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.AbiSolid
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Capillary
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.CompleteGenomics
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Helicos
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Illumina
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.IonTorrent
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.Ls454
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType.PacbioSmrt
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.AbiSolid
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Capillary
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.CompleteGenomics
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Helicos
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Illumina
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.IonTorrent
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.Ls454
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType.PacbioSmrt
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.AbiSolid
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Capillary
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.CompleteGenomics
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Helicos
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Illumina
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.IonTorrent
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.Ls454
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType.PacbioSmrt
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.AbiSolid
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Capillary
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.CompleteGenomics
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Helicos
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Illumina
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.IonTorrent
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.Ls454
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType.PacbioSmrt
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.AbiSolid
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Capillary
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.CompleteGenomics
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Helicos
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Illumina
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.IonTorrent
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.Ls454
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType.PacbioSmrt
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.AbiSolid
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Capillary
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.CompleteGenomics
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Helicos
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Illumina
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.IonTorrent
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.Ls454
-
Sets the value of the instrumentModel property.
- setInstrumentModel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType.PacbioSmrt
-
Sets the value of the instrumentModel property.
- setInternalValidation(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Sets the value of the internalValidation property.
- setInterpretation(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Sets the value of the interpretation property.
- setIonTorrent(PlatformType.IonTorrent) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the ionTorrent property.
- setIonTorrent(PlatformType.IonTorrent) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the ionTorrent property.
- setIonTorrent(PlatformType.IonTorrent) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the ionTorrent property.
- setIonTorrent(PlatformType.IonTorrent) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the ionTorrent property.
- setIonTorrent(PlatformType.IonTorrent) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the ionTorrent property.
- setIonTorrent(PlatformType.IonTorrent) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the ionTorrent property.
- setIonTorrent(PlatformType.IonTorrent) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the ionTorrent property.
- setIRBNumber(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the irbNumber property.
- setIsClinVar(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the isClinVar property.
- setIsDirector(boolean) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the isDirector property.
- setIsGTR(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the isGTR property.
- setIsPrimary(boolean) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.RelatedStudies.RelatedStudy
-
Sets the value of the isPrimary property.
- setItemReviewed(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Sets the value of the itemReviewed property.
- setLabAffiliation(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabAffiliations
-
Sets the value of the labAffiliation property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType.Sequence
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.UrlType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.XRefType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType.Sequence
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.UrlType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.XRefType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType.Sequence
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.UrlType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.XRefType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType.Sequence
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.UrlType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.XRefType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType.Sequence
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.UrlType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.XRefType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType.Sequence
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.UrlType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.XRefType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType.Sequence
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.UrlType
-
Sets the value of the label property.
- setLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.XRefType
-
Sets the value of the label property.
- setLabName(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the labName property.
- setLabOrderCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the labOrderCode property.
- setLabUniqueCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the labUniqueCode property.
- setLast(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Sets the value of the last property.
- setLastTouched(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
Sets the value of the lastTouched property.
- setLastTouched(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
Sets the value of the lastTouched property.
- setLastUpdate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the lastUpdate property.
- setLastUpdate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
Sets the value of the lastUpdate property.
- setLastUpdate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
Sets the value of the lastUpdate property.
- setLastUpdated(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.GeneSetType
-
Sets the value of the lastUpdated property.
- setLastUpdated(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Sets the value of the lastUpdated property.
- setLibraryConstructionProtocol(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the libraryConstructionProtocol property.
- setLibraryDescriptor(LibraryDescriptorType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Sets the value of the libraryDescriptor property.
- setLibraryLayout(LibraryDescriptorType.LibraryLayout) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the libraryLayout property.
- setLibraryName(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the libraryName property.
- setLibrarySelection(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the librarySelection property.
- setLibrarySource(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the librarySource property.
- setLibraryStrategy(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the libraryStrategy property.
- setLine1(String) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the line1 property.
- setLine2(String) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the line2 property.
- setLine3(String) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the line3 property.
- setLocus(String) - Method in class org.nmdp.ngs.hml.jaxb.Haploid
-
Sets the value of the locus property.
- setLocus(String) - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Sets the value of the locus property.
- setLocus(String) - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Sets the value of the locus property.
- setLocus(String) - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Sets the value of the locus property.
- setLocus(String) - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Sets the value of the locus property.
- setLocusName(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.TargetedLoci.Locus
-
Sets the value of the locusName property.
- setLOINC(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the loinc property.
- setLs454(PlatformType.Ls454) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the ls454 property.
- setLs454(PlatformType.Ls454) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the ls454 property.
- setLs454(PlatformType.Ls454) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the ls454 property.
- setLs454(PlatformType.Ls454) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the ls454 property.
- setLs454(PlatformType.Ls454) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the ls454 property.
- setLs454(PlatformType.Ls454) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the ls454 property.
- setLs454(PlatformType.Ls454) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the ls454 property.
- setMailingAddress(AddressType) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Sets the value of the mailingAddress property.
- setManufacturerTestName(GTRLabTestType.ManufacturerTestName) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the manufacturerTestName property.
- setMatchEdge(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the matchEdge property.
- setMatchEdge(String) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the matchEdge property.
- setMatchEdge(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the matchEdge property.
- setMatchEdge(String) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the matchEdge property.
- setMatchEdge(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the matchEdge property.
- setMatchEdge(String) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the matchEdge property.
- setMatchEdge(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the matchEdge property.
- setMaxMismatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the maxMismatch property.
- setMaxMismatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the maxMismatch property.
- setMaxMismatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the maxMismatch property.
- setMaxMismatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the maxMismatch property.
- setMaxMismatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the maxMismatch property.
- setMaxMismatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the maxMismatch property.
- setMaxMismatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the maxMismatch property.
- setMeasureSet(MeasureSetType) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the measureSet property.
- setMechanism(GTRLabTestType.Indications.Mechanism) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Sets the value of the mechanism property.
- setMemberName(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Sets the value of the memberName property.
- setMemberName(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock
-
Sets the value of the memberName property.
- setMethod(GTRLabResearchTestType.Method) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the method property.
- setMethod(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Sets the value of the method property.
- setMethod(GTRLabTestType.Method) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the method property.
- setMethod(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Sets the value of the method property.
- setMethod(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Assertion
-
Sets the value of the method property.
- setMethod(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinicalSignificance
-
Sets the value of the method property.
- setMethod(String) - Method in class org.nmdp.ngs.hml.jaxb.Haploid
-
Sets the value of the method property.
- setMethodAdd(GTRLabResearchTestType.MethodAdd) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the methodAdd property.
- setMethodAdd(GTRLabTestType.MethodAdd) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the methodAdd property.
- setMiddle(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Sets the value of the middle property.
- setMinGapLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Sets the value of the minGapLength property.
- setMinMatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the minMatch property.
- setMinMatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the minMatch property.
- setMinMatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the minMatch property.
- setMinMatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the minMatch property.
- setMinMatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the minMatch property.
- setMinMatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the minMatch property.
- setMinMatch(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the minMatch property.
- setModify(Submission.Actions.Action.Modify) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the modify property.
- setName(String) - Method in class org.nmdp.ngs.feature.Allele
-
- setName(String) - Method in class org.nmdp.ngs.gtr.jaxb.CredentialType
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.gtr.jaxb.DegreeType
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.gtr.jaxb.LabCertificationType
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Sets the value of the name property.
- setName(PersonType.Name) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.hml.jaxb.Property
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.hml.jaxb.TypingTestName
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Sets the value of the name property.
- setName(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts.Contact
-
Sets the value of the name property.
- setNamespace(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.QualifiedNameType
-
Sets the value of the namespace property.
- setNamespace(String) - Method in class org.nmdp.ngs.sra.jaxb.common.QualifiedNameType
-
Sets the value of the namespace property.
- setNamespace(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.QualifiedNameType
-
Sets the value of the namespace property.
- setNamespace(String) - Method in class org.nmdp.ngs.sra.jaxb.run.QualifiedNameType
-
Sets the value of the namespace property.
- setNamespace(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.QualifiedNameType
-
Sets the value of the namespace property.
- setNamespace(String) - Method in class org.nmdp.ngs.sra.jaxb.study.QualifiedNameType
-
Sets the value of the namespace property.
- setNamespace(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.QualifiedNameType
-
Sets the value of the namespace property.
- setNewStudyType(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.StudyType
-
Sets the value of the newStudyType property.
- setNominalLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout.Paired
-
Sets the value of the nominalLength property.
- setNominalSdev(Double) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout.Paired
-
Sets the value of the nominalSdev property.
- setNotes(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Sets the value of the notes property.
- setNotes(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Sets the value of the notes property.
- setNotes(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Sets the value of the notes property.
- setNotes(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Sets the value of the notes property.
- setNotes(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Sets the value of the notes property.
- setNotes(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Sets the value of the notes property.
- setNotes(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Sets the value of the notes property.
- setNumber(String) - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Sets the value of the number property.
- setNumber(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Sets the value of the number property.
- setNumber(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Sets the value of the number property.
- setNumberOfAffected(Integer) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Sets the value of the numberOfAffected property.
- setNumberOfFamilies(Integer) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Sets the value of the numberOfFamilies property.
- setNumberOfUnaffected(Integer) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Sets the value of the numberOfUnaffected property.
- setOrder(TextURL) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the order property.
- setOrderCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestAddService
-
Sets the value of the orderCode property.
- setOrderCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestService
-
Sets the value of the orderCode property.
- setOrderCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabServices
-
Sets the value of the orderCode property.
- setOrganization(OrganizationType) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the organization property.
- setOrigin(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Sets the value of the origin property.
- setOtherValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility.Type
-
Sets the value of the otherValue property.
- setPacbioSmrt(PlatformType.PacbioSmrt) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PlatformType
-
Sets the value of the pacbioSmrt property.
- setPacbioSmrt(PlatformType.PacbioSmrt) - Method in class org.nmdp.ngs.sra.jaxb.common.PlatformType
-
Sets the value of the pacbioSmrt property.
- setPacbioSmrt(PlatformType.PacbioSmrt) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PlatformType
-
Sets the value of the pacbioSmrt property.
- setPacbioSmrt(PlatformType.PacbioSmrt) - Method in class org.nmdp.ngs.sra.jaxb.run.PlatformType
-
Sets the value of the pacbioSmrt property.
- setPacbioSmrt(PlatformType.PacbioSmrt) - Method in class org.nmdp.ngs.sra.jaxb.sample.PlatformType
-
Sets the value of the pacbioSmrt property.
- setPacbioSmrt(PlatformType.PacbioSmrt) - Method in class org.nmdp.ngs.sra.jaxb.study.PlatformType
-
Sets the value of the pacbioSmrt property.
- setPacbioSmrt(PlatformType.PacbioSmrt) - Method in class org.nmdp.ngs.sra.jaxb.submission.PlatformType
-
Sets the value of the pacbioSmrt property.
- setPaired(boolean) - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Sets the value of the paired property.
- setPaired(LibraryDescriptorType.LibraryLayout.Paired) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout
-
Sets the value of the paired property.
- setPartial(boolean) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Sets the value of the partial property.
- setParticipation(GTRLabResearchTestType.Participation) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the participation property.
- setPerson(PersonType) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the person property.
- setPhaseSet(String) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the phaseSet property.
- setPhasingGroup(String) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the phasingGroup property.
- setPhenotypeCount(int) - Method in class org.nmdp.ngs.gtr.jaxb.PhenotypeSetType
-
Sets the value of the phenotypeCount property.
- setPhone(String) - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Sets the value of the phone property.
- setPID(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the pid property.
- setPipeline(PipelineType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ProcessingType
-
Sets the value of the pipeline property.
- setPipeline(PipelineType) - Method in class org.nmdp.ngs.sra.jaxb.common.ProcessingType
-
Sets the value of the pipeline property.
- setPipeline(PipelineType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ProcessingType
-
Sets the value of the pipeline property.
- setPipeline(PipelineType) - Method in class org.nmdp.ngs.sra.jaxb.run.ProcessingType
-
Sets the value of the pipeline property.
- setPipeline(PipelineType) - Method in class org.nmdp.ngs.sra.jaxb.sample.ProcessingType
-
Sets the value of the pipeline property.
- setPipeline(PipelineType) - Method in class org.nmdp.ngs.sra.jaxb.study.ProcessingType
-
Sets the value of the pipeline property.
- setPipeline(PipelineType) - Method in class org.nmdp.ngs.sra.jaxb.submission.ProcessingType
-
Sets the value of the pipeline property.
- setPlatform(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Sets the value of the platform property.
- setPlatform(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceVariation
-
Sets the value of the platform property.
- setPlatform(PlatformType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the platform property.
- setPlatform(PlatformType) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the platform property.
- setPool(SampleDescriptorType.Pool) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Sets the value of the pool property.
- setPooled(boolean) - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Sets the value of the pooled property.
- setPoolingStrategy(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the poolingStrategy property.
- setPostCode(String) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the postCode property.
- setPrecedesReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the precedesReadIndex property.
- setPrecedesReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the precedesReadIndex property.
- setPrecedesReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the precedesReadIndex property.
- setPrecedesReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the precedesReadIndex property.
- setPrecedesReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the precedesReadIndex property.
- setPrecedesReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the precedesReadIndex property.
- setPrecedesReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
Sets the value of the precedesReadIndex property.
- setPrefix(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Sets the value of the prefix property.
- setPresent(Present) - Method in class org.nmdp.ngs.hml.jaxb.Allele
-
Sets the value of the present property.
- setPrimaryContact(boolean) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the primaryContact property.
- setPrimaryId(NameType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
Sets the value of the primaryId property.
- setPrimaryId(NameType) - Method in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
Sets the value of the primaryId property.
- setPrimaryId(NameType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
Sets the value of the primaryId property.
- setPrimaryId(NameType) - Method in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
Sets the value of the primaryId property.
- setPrimaryId(NameType) - Method in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
Sets the value of the primaryId property.
- setPrimaryId(NameType) - Method in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
Sets the value of the primaryId property.
- setPrimaryId(NameType) - Method in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
Sets the value of the primaryId property.
- setProbeSet(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.TargetedLoci.Locus
-
Sets the value of the probeSet property.
- setProcessing(ProcessingType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the processing property.
- setProcessing(ProcessingType) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the processing property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceAssembly
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType.SequenceVariation
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Sets the value of the program property.
- setProgram(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Sets the value of the program property.
- setProjectId(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the projectId property.
- setProjectName(String) - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Sets the value of the projectName property.
- setProportion(Float) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Sets the value of the proportion property.
- setProtect(Submission.Actions.Action.Protect) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the protect property.
- setProtocol(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd
-
Sets the value of the protocol property.
- setProtocol(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the protocol property.
- setProtocol(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd
-
Sets the value of the protocol property.
- setPTDescription(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Sets the value of the ptDescription property.
- setPTPerformed(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Sets the value of the ptPerformed property.
- setPTProvider(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.QualityControl
-
Sets the value of the ptProvider property.
- setPublic(boolean) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the public property.
- setPublic(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabContact
-
Sets the value of the public property.
- setPublic(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType.PublicContact
-
Sets the value of the public property.
- setPublicContact(PersonnelType.PublicContact) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the publicContact property.
- setPurpose(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the purpose property.
- setQualifier(String) - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Sets the value of the qualifier property.
- setQualifier(String) - Method in class org.nmdp.ngs.gtr.jaxb.CredentialType
-
Sets the value of the qualifier property.
- setQualifier(String) - Method in class org.nmdp.ngs.gtr.jaxb.DegreeType
-
Sets the value of the qualifier property.
- setQualifier(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
Sets the value of the qualifier property.
- setQualifier(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
Sets the value of the qualifier property.
- setQualifier(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Sets the value of the qualifier property.
- setQualityControl(GTRLabTestType.QualityControl) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the qualityControl property.
- setQualityEncoding(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the qualityEncoding property.
- setQualityScore(double) - Method in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
Sets the value of the qualityScore property.
- setQualityScore(Double) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the qualityScore property.
- setQualityScoringSystem(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the qualityScoringSystem property.
- setQualityTrimmed(boolean) - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Sets the value of the qualityTrimmed property.
- setQuery(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.EntrezLink
-
Sets the value of the query property.
- setQuery(String) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.EntrezLink
-
Sets the value of the query property.
- setQuery(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.EntrezLink
-
Sets the value of the query property.
- setQuery(String) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.EntrezLink
-
Sets the value of the query property.
- setQuery(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.EntrezLink
-
Sets the value of the query property.
- setQuery(String) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.EntrezLink
-
Sets the value of the query property.
- setQuery(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.EntrezLink
-
Sets the value of the query property.
- setReadClass(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readClass property.
- setReadClass(String) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readClass property.
- setReadClass(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readClass property.
- setReadClass(String) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readClass property.
- setReadClass(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readClass property.
- setReadClass(String) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readClass property.
- setReadClass(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readClass property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the readGroupTag property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the readGroupTag property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType.ReadLabel
-
Sets the value of the readGroupTag property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the readGroupTag property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the readGroupTag property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the readGroupTag property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the readGroupTag property.
- setReadGroupTag(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the readGroupTag property.
- setReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readIndex property.
- setReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readIndex property.
- setReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readIndex property.
- setReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readIndex property.
- setReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readIndex property.
- setReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readIndex property.
- setReadIndex(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readIndex property.
- setReadLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readLabel property.
- setReadLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readLabel property.
- setReadLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readLabel property.
- setReadLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readLabel property.
- setReadLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readLabel property.
- setReadLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readLabel property.
- setReadLabel(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readLabel property.
- setReadType(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readType property.
- setReadType(String) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readType property.
- setReadType(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readType property.
- setReadType(String) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readType property.
- setReadType(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readType property.
- setReadType(String) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readType property.
- setReadType(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the readType property.
- setReContact(GTRLabTestType.TestResults.ReContact) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Sets the value of the reContact property.
- setRecontactAnswer(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.ReContact
-
Sets the value of the recontactAnswer property.
- setRecruit(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS.RecruitFamily
-
Sets the value of the recruit property.
- setRecruitFamily(GTRLabTestType.TestResults.VUS.RecruitFamily) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Sets the value of the recruitFamily property.
- setRecruitmentSites(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Sets the value of the recruitmentSites property.
- setRecruitmentStatus(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Participation
-
Sets the value of the recruitmentStatus property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Sets the value of the refcenter property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Sets the value of the refcenter property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Sets the value of the refcenter property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Sets the value of the refcenter property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Sets the value of the refcenter property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Sets the value of the refcenter property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Sets the value of the refcenter property.
- setRefcenter(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Sets the value of the refcenter property.
- setReferenceAlignment(ReferenceSequenceType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Sets the value of the referenceAlignment property.
- setReferenceAlignment(ReferenceSequenceType) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.RunType
-
Sets the value of the referenceAlignment property.
- setReferenceBases(String) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the referenceBases property.
- setReferenceSequence(Object) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Sets the value of the referenceSequence property.
- setReferenceSequenceId(Object) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the referenceSequenceId property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisRef
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.RunRef
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.SampleRef
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.StudyRef
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Standard
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceSequenceType.Sequence
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Standard
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceSequenceType.Sequence
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment.StudyRef
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Standard
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceSequenceType.Sequence
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SampleDescriptorType
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Standard
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceSequenceType.Sequence
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.ExperimentRef
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Standard
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceSequenceType.Sequence
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Standard
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceSequenceType.Sequence
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Standard
-
Sets the value of the refname property.
- setRefname(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceSequenceType.Sequence
-
Sets the value of the refname property.
- setRegulations(GTRLabTestType.Regulations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the regulations property.
- setRelatedLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.RelatedStudies.RelatedStudy
-
Sets the value of the relatedLink property.
- setRelatedStudies(Study.Descriptor.RelatedStudies) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the relatedStudies property.
- setRelativeOrder(SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the relativeOrder property.
- setRelativeOrder(SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the relativeOrder property.
- setRelativeOrder(SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the relativeOrder property.
- setRelativeOrder(SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the relativeOrder property.
- setRelativeOrder(SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the relativeOrder property.
- setRelativeOrder(SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the relativeOrder property.
- setRelativeOrder(SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
Sets the value of the relativeOrder property.
- setRelease(Submission.Actions.Action.Release) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the release property.
- setReportingCenter(ReportingCenter) - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Sets the value of the reportingCenter property.
- setReportingCenterContext(String) - Method in class org.nmdp.ngs.hml.jaxb.ReportingCenter
-
Sets the value of the reportingCenterContext property.
- setReportingCenterId(String) - Method in class org.nmdp.ngs.hml.jaxb.ReportingCenter
-
Sets the value of the reportingCenterId property.
- setReportingPolicy(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Sets the value of the reportingPolicy property.
- setResearch(GTRLabTestType.TestResults.Research) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Sets the value of the research property.
- setReviewed(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability.TestExternal
-
Sets the value of the reviewed property.
- setRoot(String) - Method in class org.nmdp.ngs.hml.jaxb.Hmlid
-
Sets the value of the root property.
- setRunAttributes(Run.RunAttributes) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the runAttributes property.
- setRunCenter(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the runCenter property.
- setRunDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the runDate property.
- setRunLinks(Run.RunLinks) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the runLinks property.
- setRunType(Run.RunType) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the runType property.
- setSampleAttributes(Sample.SampleAttributes) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the sampleAttributes property.
- setSampleDemuxDirective(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SequencingDirectivesType
-
Sets the value of the sampleDemuxDirective property.
- setSampleDemuxDirective(String) - Method in class org.nmdp.ngs.sra.jaxb.common.SequencingDirectivesType
-
Sets the value of the sampleDemuxDirective property.
- setSampleDemuxDirective(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SequencingDirectivesType
-
Sets the value of the sampleDemuxDirective property.
- setSampleDemuxDirective(String) - Method in class org.nmdp.ngs.sra.jaxb.run.SequencingDirectivesType
-
Sets the value of the sampleDemuxDirective property.
- setSampleDemuxDirective(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.SequencingDirectivesType
-
Sets the value of the sampleDemuxDirective property.
- setSampleDemuxDirective(String) - Method in class org.nmdp.ngs.sra.jaxb.study.SequencingDirectivesType
-
Sets the value of the sampleDemuxDirective property.
- setSampleDemuxDirective(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.SequencingDirectivesType
-
Sets the value of the sampleDemuxDirective property.
- setSampleDescriptor(SampleDescriptorType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Sets the value of the sampleDescriptor property.
- setSampleLinks(Sample.SampleLinks) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the sampleLinks property.
- setSampleName(Sample.SampleName) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the sampleName property.
- setSampleNegReport(FileType) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Sets the value of the sampleNegReport property.
- setSamplePhenotype(Analysis.AnalysisType.SamplePhenotype) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Sets the value of the samplePhenotype property.
- setSamplePosReport(FileType) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Sets the value of the samplePosReport property.
- setSampleVUSReport(FileType) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Sets the value of the sampleVUSReport property.
- setSchema(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Add
-
Sets the value of the schema property.
- setSchema(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Modify
-
Sets the value of the schema property.
- setSchema(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Validate
-
Sets the value of the schema property.
- setScientificName(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Sets the value of the scientificName property.
- setScores(String) - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Sets the value of the scores property.
- setScores(String) - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Sets the value of the scores property.
- setSectionName(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Sets the value of the sectionName property.
- setSectionName(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Sets the value of the sectionName property.
- setSectionName(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Sets the value of the sectionName property.
- setSectionName(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Sets the value of the sectionName property.
- setSectionName(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Sets the value of the sectionName property.
- setSectionName(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Sets the value of the sectionName property.
- setSectionName(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Sets the value of the sectionName property.
- setSequence(Sequence) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the sequence property.
- setSequenceAnnotation(Analysis.AnalysisType.SequenceAnnotation) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Sets the value of the sequenceAnnotation property.
- setSequenceAssembly(Analysis.AnalysisType.SequenceAssembly) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Sets the value of the sequenceAssembly property.
- setSequenceEnd(long) - Method in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
Sets the value of the sequenceEnd property.
- setSequenceStart(long) - Method in class org.nmdp.ngs.hml.jaxb.SequenceQuality
-
Sets the value of the sequenceStart property.
- setSequenceVariation(Analysis.AnalysisType.SequenceVariation) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis.AnalysisType
-
Sets the value of the sequenceVariation property.
- setSetID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType
-
Sets the value of the setID property.
- setSetID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType
-
Sets the value of the setID property.
- setSingle(LibraryDescriptorType.LibraryLayout.Single) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout
-
Sets the value of the single property.
- setSoftware(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
Sets the value of the software property.
- setSource(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the source property.
- setSource(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
Sets the value of the source property.
- setSource(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
Sets the value of the source property.
- setSource(Boolean) - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Sets the value of the source property.
- setSource(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Add
-
Sets the value of the source property.
- setSource(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Modify
-
Sets the value of the source property.
- setSource(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Validate
-
Sets the value of the source property.
- setSourceType(String) - Method in class org.nmdp.ngs.gtr.jaxb.DataSourceType
-
Sets the value of the sourceType property.
- setSpecialty(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Sets the value of the specialty property.
- setSpecimen(GTRLabTestType.Specimen) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the specimen property.
- setSpotDecodeSpec(SpotDescriptorType.SpotDecodeSpec) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType
-
Sets the value of the spotDecodeSpec property.
- setSpotDecodeSpec(SpotDescriptorType.SpotDecodeSpec) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType
-
Sets the value of the spotDecodeSpec property.
- setSpotDecodeSpec(SpotDescriptorType.SpotDecodeSpec) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType
-
Sets the value of the spotDecodeSpec property.
- setSpotDecodeSpec(SpotDescriptorType.SpotDecodeSpec) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType
-
Sets the value of the spotDecodeSpec property.
- setSpotDecodeSpec(SpotDescriptorType.SpotDecodeSpec) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType
-
Sets the value of the spotDecodeSpec property.
- setSpotDecodeSpec(SpotDescriptorType.SpotDecodeSpec) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType
-
Sets the value of the spotDecodeSpec property.
- setSpotDecodeSpec(SpotDescriptorType.SpotDecodeSpec) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType
-
Sets the value of the spotDecodeSpec property.
- setSpotDescriptor(SpotDescriptorType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
Sets the value of the spotDescriptor property.
- setSpotDescriptor(SpotDescriptorType) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the spotDescriptor property.
- setSpotLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec
-
Sets the value of the spotLength property.
- setSpotLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec
-
Sets the value of the spotLength property.
- setSpotLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec
-
Sets the value of the spotLength property.
- setSpotLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec
-
Sets the value of the spotLength property.
- setSpotLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec
-
Sets the value of the spotLength property.
- setSpotLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec
-
Sets the value of the spotLength property.
- setSpotLength(BigInteger) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec
-
Sets the value of the spotLength property.
- setStandard(ReferenceAssemblyType.Standard) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType
-
Sets the value of the standard property.
- setStandard(ReferenceAssemblyType.Standard) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType
-
Sets the value of the standard property.
- setStandard(ReferenceAssemblyType.Standard) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType
-
Sets the value of the standard property.
- setStandard(ReferenceAssemblyType.Standard) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType
-
Sets the value of the standard property.
- setStandard(ReferenceAssemblyType.Standard) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType
-
Sets the value of the standard property.
- setStandard(ReferenceAssemblyType.Standard) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType
-
Sets the value of the standard property.
- setStandard(ReferenceAssemblyType.Standard) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType
-
Sets the value of the standard property.
- setStart(Long) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the start property.
- setStart(Long) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the start property.
- setStart(long) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the start property.
- setState(AddressType.State) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType
-
Sets the value of the state property.
- setStatus(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
Sets the value of the status property.
- setStepIndex(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Sets the value of the stepIndex property.
- setStepIndex(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Sets the value of the stepIndex property.
- setStepIndex(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Sets the value of the stepIndex property.
- setStepIndex(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Sets the value of the stepIndex property.
- setStepIndex(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Sets the value of the stepIndex property.
- setStepIndex(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Sets the value of the stepIndex property.
- setStepIndex(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Sets the value of the stepIndex property.
- setStrand(String) - Method in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
Sets the value of the strand property.
- setStrand(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the strand property.
- setStreetAddress(AddressType) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Sets the value of the streetAddress property.
- setStudy(GTRLabResearchTestType.Study) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the study property.
- setStudyAbstract(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the studyAbstract property.
- setStudyAttributes(Study.StudyAttributes) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the studyAttributes property.
- setStudyDescription(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the studyDescription property.
- setStudyLinks(Study.StudyLinks) - Method in class org.nmdp.ngs.sra.jaxb.study.Study
-
Sets the value of the studyLinks property.
- setStudyName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the studyName property.
- setStudyRef(Analysis.StudyRef) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the studyRef property.
- setStudyRef(Experiment.StudyRef) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the studyRef property.
- setStudyShortName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the studyShortName property.
- setStudyTitle(String) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the studyTitle property.
- setStudyType(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the studyType property.
- setStudyType(Study.Descriptor.StudyType) - Method in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
Sets the value of the studyType property.
- setSubmissionAttributes(Submission.SubmissionAttributes) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the submissionAttributes property.
- setSubmissionComment(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the submissionComment property.
- setSubmissionDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the submissionDate property.
- setSubmissionDate(XMLGregorianCalendar) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the submissionDate property.
- setSubmissionLinks(Submission.SubmissionLinks) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the submissionLinks property.
- setSubmitterId(QualifiedNameType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
Sets the value of the submitterId property.
- setSubmitterId(QualifiedNameType) - Method in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
Sets the value of the submitterId property.
- setSubmitterId(QualifiedNameType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
Sets the value of the submitterId property.
- setSubmitterId(QualifiedNameType) - Method in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
Sets the value of the submitterId property.
- setSubmitterId(QualifiedNameType) - Method in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
Sets the value of the submitterId property.
- setSubmitterId(QualifiedNameType) - Method in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
Sets the value of the submitterId property.
- setSubmitterId(QualifiedNameType) - Method in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
Sets the value of the submitterId property.
- setSubSpecialty(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
Sets the value of the subSpecialty property.
- setSuffix(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
Sets the value of the suffix property.
- setSuppress(Submission.Actions.Action.Suppress) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the suppress property.
- setTabSize(int) - Method in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
- setTag(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AttributeType
-
Sets the value of the tag property.
- setTag(String) - Method in class org.nmdp.ngs.sra.jaxb.common.AttributeType
-
Sets the value of the tag property.
- setTag(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.AttributeType
-
Sets the value of the tag property.
- setTag(String) - Method in class org.nmdp.ngs.sra.jaxb.run.AttributeType
-
Sets the value of the tag property.
- setTag(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.AttributeType
-
Sets the value of the tag property.
- setTag(String) - Method in class org.nmdp.ngs.sra.jaxb.study.AttributeType
-
Sets the value of the tag property.
- setTag(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.AttributeType
-
Sets the value of the tag property.
- setTarget(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Cancel
-
Sets the value of the target property.
- setTarget(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Hold
-
Sets the value of the target property.
- setTarget(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Release
-
Sets the value of the target property.
- setTarget(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Suppress
-
Sets the value of the target property.
- setTargetedLoci(LibraryDescriptorType.TargetedLoci) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType
-
Sets the value of the targetedLoci property.
- setTargetPop(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Sets the value of the targetPop property.
- setTaxonId(int) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample.SampleName
-
Sets the value of the taxonId property.
- setTerm(String) - Method in class org.nmdp.ngs.hml.jaxb.VariantEffect
-
Sets the value of the term property.
- setTestCodes(URL) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the testCodes property.
- setTestCount(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting
-
Sets the value of the testCount property.
- setTestCount(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.GeneTesting
-
Sets the value of the testCount property.
- setTestCount(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the testCount property.
- setTestCountElem(Integer) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
Sets the value of the testCountElem property.
- setTestDevelopment(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the testDevelopment property.
- setTestExternal(GTRLabTestType.Availability.TestExternal) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability
-
Sets the value of the testExternal property.
- setTestID(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ManufacturerTestName
-
Sets the value of the testID property.
- setTestId(String) - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Sets the value of the testId property.
- setTestId(String) - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Sets the value of the testId property.
- setTestId(String) - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Sets the value of the testId property.
- setTestId(String) - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Sets the value of the testId property.
- setTestId(String) - Method in class org.nmdp.ngs.hml.jaxb.TypingTestNames
-
Sets the value of the testId property.
- setTestIdSource(String) - Method in class org.nmdp.ngs.hml.jaxb.SbtNgs
-
Sets the value of the testIdSource property.
- setTestIdSource(String) - Method in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
Sets the value of the testIdSource property.
- setTestIdSource(String) - Method in class org.nmdp.ngs.hml.jaxb.Sso
-
Sets the value of the testIdSource property.
- setTestIdSource(String) - Method in class org.nmdp.ngs.hml.jaxb.Ssp
-
Sets the value of the testIdSource property.
- setTestName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the testName property.
- setTestName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the testName property.
- setTestPerformedText(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability
-
Sets the value of the testPerformedText property.
- setTestResults(GTRLabTestType.TestResults) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the testResults property.
- setTestShortName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the testShortName property.
- setTestShortName(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the testShortName property.
- setTestStrategy(TextCitations) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the testStrategy property.
- setTestType(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
Sets the value of the testType property.
- setTestType(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications
-
Sets the value of the testType property.
- setTestURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the testURL property.
- setTestURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the testURL property.
- setText(Object) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.DescrSet
-
Sets the value of the text property.
- setTissue(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ObservedIn
-
Sets the value of the tissue property.
- setTitle(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-
Sets the value of the title property.
- setTitle(MeasureTraitType.Title) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the title property.
- setTitle(String) - Method in class org.nmdp.ngs.gtr.jaxb.PersonnelType
-
Sets the value of the title property.
- setTitle(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
Sets the value of the title property.
- setTitle(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
Sets the value of the title property.
- setTitle(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run
-
Sets the value of the title property.
- setTitle(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.Sample
-
Sets the value of the title property.
- setTitle(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
Sets the value of the title property.
- setTotal(int) - Method in class org.nmdp.ngs.gtr.jaxb.SubmissionSummaryType
-
Sets the value of the total property.
- setTraitSet(TraitSetType) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
Sets the value of the traitSet property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.AcronymSet
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.DescrSet
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.SynonymSet
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.StudyPerson
-
Sets the value of the type property.
- setType(GTRLabTestType.ClinicalUtility.Type) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.OtherName
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.LabCertificationType
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Assertion
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinVarAcc
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Title
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Sets the value of the type property.
- setType(String) - Method in class org.nmdp.ngs.hml.jaxb.Haploid
-
Sets the value of the type property.
- setTypingMethod(TypingMethod) - Method in class org.nmdp.ngs.hml.jaxb.Typing
-
Sets the value of the typingMethod property.
- setUnencryptedChecksum(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AnalysisFileType
-
Sets the value of the unencryptedChecksum property.
- setUnencryptedChecksum(String) - Method in class org.nmdp.ngs.sra.jaxb.run.Run.DataBlock.Files.File
-
Sets the value of the unencryptedChecksum property.
- setUnit(String) - Method in class org.nmdp.ngs.gtr.jaxb.CertificationType
-
Sets the value of the unit property.
- setUnit(String) - Method in class org.nmdp.ngs.gtr.jaxb.CredentialType
-
Sets the value of the unit property.
- setUnit(Object) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.TestCertification
-
Sets the value of the unit property.
- setUnits(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AttributeType
-
Sets the value of the units property.
- setUnits(String) - Method in class org.nmdp.ngs.sra.jaxb.common.AttributeType
-
Sets the value of the units property.
- setUnits(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.AttributeType
-
Sets the value of the units property.
- setUnits(String) - Method in class org.nmdp.ngs.sra.jaxb.run.AttributeType
-
Sets the value of the units property.
- setUnits(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.AttributeType
-
Sets the value of the units property.
- setUnits(String) - Method in class org.nmdp.ngs.sra.jaxb.study.AttributeType
-
Sets the value of the units property.
- setUnits(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.AttributeType
-
Sets the value of the units property.
- setUri(String) - Method in class org.nmdp.ngs.hml.jaxb.Glstring
-
Sets the value of the uri property.
- setUri(String) - Method in class org.nmdp.ngs.hml.jaxb.RawReads
-
Sets the value of the uri property.
- setUri(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
Sets the value of the uri property.
- setUri(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Sets the value of the uri property.
- setUri(String) - Method in class org.nmdp.ngs.hml.jaxb.Variant
-
Sets the value of the uri property.
- setUri(String) - Method in class org.nmdp.ngs.hml.jaxb.VariantEffect
-
Sets the value of the uri property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.ContactType
-
Sets the value of the url property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Specimen
-
Sets the value of the url property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabAffiliations
-
Sets the value of the url property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
Sets the value of the url property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.SetElementComplexType
-
Sets the value of the url property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.TextCitationsURL
-
Sets the value of the url property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.TextURL
-
Sets the value of the url property.
- setURL(String) - Method in class org.nmdp.ngs.gtr.jaxb.XrefType
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.UrlType
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.common.UrlType
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.UrlType
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.run.UrlType
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.UrlType
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.study.UrlType
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType.Custom.UrlLink
-
Sets the value of the url property.
- setUrl(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.UrlType
-
Sets the value of the url property.
- setUrlLink(LinkType.UrlLink) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType
-
Sets the value of the urlLink property.
- setUrlLink(LinkType.UrlLink) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType
-
Sets the value of the urlLink property.
- setUrlLink(LinkType.UrlLink) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType
-
Sets the value of the urlLink property.
- setUrlLink(LinkType.UrlLink) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType
-
Sets the value of the urlLink property.
- setUrlLink(LinkType.UrlLink) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType
-
Sets the value of the urlLink property.
- setUrlLink(LinkType.UrlLink) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType
-
Sets the value of the urlLink property.
- setUrlLink(LinkType.UrlLink) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType
-
Sets the value of the urlLink property.
- setValidate(Submission.Actions.Action.Validate) - Method in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
Sets the value of the validate property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.Country
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.AddressType.State
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.AcronymSet
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.DescrSet
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType.SynonymSet
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.FileType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category.Methodology
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory.Category
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Method.TopCategory
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.MethodAdd.Exons
-
Sets the value of the value property.
- setValue(int) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.StudyPerson
-
Sets the value of the value property.
- setValue(boolean) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Availability.TestExternal
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ClinicalUtility.Type
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Inheritance
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Indications.Mechanism
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.ManufacturerTestName
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category.Methodology
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory.Category
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Method.TopCategory
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.MethodAdd.Exons
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.OtherName
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestAddService
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.ReContact
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS.RecruitFamily
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestService
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory.Category
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTROrgType.DiseaseTesting.Method.TopCategory
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn.Location
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Location
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.Title
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.OrganizationType.LabServices
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.gtr.jaxb.SetElementType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.hml.jaxb.Allele
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.hml.jaxb.Glstring
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.hml.jaxb.Property
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.hml.jaxb.Sequence
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.AttributeType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.NameType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.common.AttributeType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.common.NameType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.AttributeType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.NameType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PoolMemberType.ReadLabel
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.run.AttributeType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.run.NameType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.AttributeType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.NameType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.study.AttributeType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.study.NameType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.AttributeType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.NameType
-
Sets the value of the value property.
- setValue(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
Sets the value of the value property.
- setVersion(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.gtr.jaxb.GTRPublicData
-
Sets the value of the version property.
- setVersion(BigInteger) - Method in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType.ClinVarAcc
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.hml.jaxb.Hml
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
Sets the value of the version property.
- setVersion(String) - Method in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
Sets the value of the version property.
- setVUS(GTRLabTestType.TestResults.VUS) - Method in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults
-
Sets the value of the vus property.
- setXrefLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.analysis.LinkType
-
Sets the value of the xrefLink property.
- setXrefLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.common.LinkType
-
Sets the value of the xrefLink property.
- setXrefLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.experiment.LinkType
-
Sets the value of the xrefLink property.
- setXrefLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.run.LinkType
-
Sets the value of the xrefLink property.
- setXrefLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.sample.LinkType
-
Sets the value of the xrefLink property.
- setXrefLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.study.LinkType
-
Sets the value of the xrefLink property.
- setXrefLink(XRefType) - Method in class org.nmdp.ngs.sra.jaxb.submission.LinkType
-
Sets the value of the xrefLink property.
- SimpleCharStream - Class in org.nmdp.ngs.feature.parser
-
An implementation of interface CharStream, where the stream is assumed to
contain only ASCII characters (without unicode processing).
- SimpleCharStream(Reader, int, int, int) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(Reader, int, int) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(Reader) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(InputStream, String, int, int, int) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(InputStream, int, int, int) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(InputStream, String, int, int) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(InputStream, int, int) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(InputStream, String) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- SimpleCharStream(InputStream) - Constructor for class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Constructor.
- single - Variable in class org.nmdp.ngs.sra.jaxb.experiment.LibraryDescriptorType.LibraryLayout
-
- singleton(N) - Static method in class org.nmdp.ngs.range.rtree.RangeGeometries
-
Create and return a new point geometry from the specified singleton value.
- size - Variable in class org.nmdp.ngs.fca.AbstractLattice
-
- size() - Method in class org.nmdp.ngs.fca.AbstractLattice
-
- size() - Method in class org.nmdp.ngs.range.tree.CenteredRangeTree
-
- size() - Method in class org.nmdp.ngs.range.tree.RangeList
-
- size() - Method in interface org.nmdp.ngs.range.tree.RangeTree
-
Return the number of ranges in this range tree.
- SLASH - Static variable in interface org.nmdp.ngs.feature.parser.FeatureParserConstants
-
RegularExpression Id.
- software - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.TestResults.VUS
-
- source() - Method in class org.nmdp.ngs.align.HighScoringPair
-
Return the source for this high-scoring segment pair (HSP).
- source - Variable in class org.nmdp.ngs.gtr.jaxb.GTROrgType
-
- source - Variable in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabResearchTest
-
- source - Variable in class org.nmdp.ngs.gtr.jaxb.GTRPublicData.GTRLabData.GTRLabTest
-
- source - Variable in class org.nmdp.ngs.gtr.jaxb.XrefType
-
- source - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Add
-
- source - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Modify
-
- source - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Validate
-
- sourceEnd() - Method in class org.nmdp.ngs.align.HighScoringPair
-
Return the source end for this high-scoring segment pair (HSP).
- sourceStart() - Method in class org.nmdp.ngs.align.HighScoringPair
-
Return the source start for this high-scoring segment pair (HSP).
- sourceType - Variable in class org.nmdp.ngs.gtr.jaxb.DataSourceType
-
- specialToken - Variable in class org.nmdp.ngs.feature.parser.Token
-
This field is used to access special tokens that occur prior to this
token, but after the immediately preceding regular (non-special) token.
- specialty - Variable in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
- specimen - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType
-
- specimenTypes - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Specimen
-
- SplitFasta - Class in org.nmdp.ngs.tools
-
Split sequences in FASTA format and write to separate files in FASTA format.
- SplitFasta(File, String, String, File) - Constructor for class org.nmdp.ngs.tools.SplitFasta
-
Split sequences in FASTA format and write to separate files in FASTA format.
- spotDecodeSpec - Variable in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType
-
- spotDecodeSpec - Variable in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType
-
- spotDecodeSpec - Variable in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType
-
- spotDecodeSpec - Variable in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType
-
- spotDecodeSpec - Variable in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType
-
- spotDecodeSpec - Variable in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType
-
- spotDecodeSpec - Variable in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType
-
- spotDescriptor - Variable in class org.nmdp.ngs.sra.jaxb.experiment.LibraryType
-
- spotDescriptor - Variable in class org.nmdp.ngs.sra.jaxb.run.Run
-
- SpotDescriptorType - Class in org.nmdp.ngs.sra.jaxb.analysis
-
The SPOT_DESCRIPTOR specifies how to decode the individual reads of interest from the
monolithic spot sequence.
- SpotDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType
-
- SpotDescriptorType - Class in org.nmdp.ngs.sra.jaxb.common
-
The SPOT_DESCRIPTOR specifies how to decode the individual reads of interest from the
monolithic spot sequence.
- SpotDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType
-
- SpotDescriptorType - Class in org.nmdp.ngs.sra.jaxb.experiment
-
The SPOT_DESCRIPTOR specifies how to decode the individual reads of interest from the
monolithic spot sequence.
- SpotDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType
-
- SpotDescriptorType - Class in org.nmdp.ngs.sra.jaxb.run
-
The SPOT_DESCRIPTOR specifies how to decode the individual reads of interest from the
monolithic spot sequence.
- SpotDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType
-
- SpotDescriptorType - Class in org.nmdp.ngs.sra.jaxb.sample
-
The SPOT_DESCRIPTOR specifies how to decode the individual reads of interest from the
monolithic spot sequence.
- SpotDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType
-
- SpotDescriptorType - Class in org.nmdp.ngs.sra.jaxb.study
-
The SPOT_DESCRIPTOR specifies how to decode the individual reads of interest from the
monolithic spot sequence.
- SpotDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType
-
- SpotDescriptorType - Class in org.nmdp.ngs.sra.jaxb.submission
-
The SPOT_DESCRIPTOR specifies how to decode the individual reads of interest from the
monolithic spot sequence.
- SpotDescriptorType() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType
-
- SpotDescriptorType.SpotDecodeSpec - Class in org.nmdp.ngs.sra.jaxb.analysis
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec
-
- SpotDescriptorType.SpotDecodeSpec - Class in org.nmdp.ngs.sra.jaxb.common
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec
-
- SpotDescriptorType.SpotDecodeSpec - Class in org.nmdp.ngs.sra.jaxb.experiment
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec
-
- SpotDescriptorType.SpotDecodeSpec - Class in org.nmdp.ngs.sra.jaxb.run
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec
-
- SpotDescriptorType.SpotDecodeSpec - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec
-
- SpotDescriptorType.SpotDecodeSpec - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec
-
- SpotDescriptorType.SpotDecodeSpec - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec - Class in org.nmdp.ngs.sra.jaxb.analysis
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec - Class in org.nmdp.ngs.sra.jaxb.common
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec - Class in org.nmdp.ngs.sra.jaxb.experiment
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec - Class in org.nmdp.ngs.sra.jaxb.run
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable - Class in org.nmdp.ngs.sra.jaxb.analysis
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable() - Constructor for class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable - Class in org.nmdp.ngs.sra.jaxb.common
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable() - Constructor for class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable - Class in org.nmdp.ngs.sra.jaxb.experiment
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable - Class in org.nmdp.ngs.sra.jaxb.run
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable() - Constructor for class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable() - Constructor for class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall - Class in org.nmdp.ngs.sra.jaxb.analysis
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall() - Constructor for class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall - Class in org.nmdp.ngs.sra.jaxb.common
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall() - Constructor for class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall - Class in org.nmdp.ngs.sra.jaxb.experiment
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall - Class in org.nmdp.ngs.sra.jaxb.run
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall() - Constructor for class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall() - Constructor for class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.ExpectedBasecallTable.Basecall
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder - Class in org.nmdp.ngs.sra.jaxb.analysis
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder() - Constructor for class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder - Class in org.nmdp.ngs.sra.jaxb.common
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder() - Constructor for class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder - Class in org.nmdp.ngs.sra.jaxb.experiment
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder() - Constructor for class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder - Class in org.nmdp.ngs.sra.jaxb.run
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder() - Constructor for class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder - Class in org.nmdp.ngs.sra.jaxb.sample
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder() - Constructor for class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder() - Constructor for class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec.ReadSpec.RelativeOrder
-
- spotLength - Variable in class org.nmdp.ngs.sra.jaxb.analysis.SpotDescriptorType.SpotDecodeSpec
-
- spotLength - Variable in class org.nmdp.ngs.sra.jaxb.common.SpotDescriptorType.SpotDecodeSpec
-
- spotLength - Variable in class org.nmdp.ngs.sra.jaxb.experiment.SpotDescriptorType.SpotDecodeSpec
-
- spotLength - Variable in class org.nmdp.ngs.sra.jaxb.run.SpotDescriptorType.SpotDecodeSpec
-
- spotLength - Variable in class org.nmdp.ngs.sra.jaxb.sample.SpotDescriptorType.SpotDecodeSpec
-
- spotLength - Variable in class org.nmdp.ngs.sra.jaxb.study.SpotDescriptorType.SpotDecodeSpec
-
- spotLength - Variable in class org.nmdp.ngs.sra.jaxb.submission.SpotDescriptorType.SpotDecodeSpec
-
- SraReader - Class in org.nmdp.ngs.sra
-
Reader for SRA xml.
- SraReader() - Constructor for class org.nmdp.ngs.sra.SraReader
-
- SraWriter - Class in org.nmdp.ngs.sra
-
Writer for SRA xml.
- Sso - Class in org.nmdp.ngs.hml.jaxb
-
Specifies an SSO (sequence-specific oligonucleotide) test that was
done for this sample.
- Sso() - Constructor for class org.nmdp.ngs.hml.jaxb.Sso
-
- ssoAndSspAndSbtSanger - Variable in class org.nmdp.ngs.hml.jaxb.TypingMethod
-
- Ssp - Class in org.nmdp.ngs.hml.jaxb
-
Specifies an SSP (sequence-specific primer) test that was performed for
this sample.
- Ssp() - Constructor for class org.nmdp.ngs.hml.jaxb.Ssp
-
- standard - Variable in class org.nmdp.ngs.sra.jaxb.analysis.ReferenceAssemblyType
-
- standard - Variable in class org.nmdp.ngs.sra.jaxb.common.ReferenceAssemblyType
-
- standard - Variable in class org.nmdp.ngs.sra.jaxb.experiment.ReferenceAssemblyType
-
- standard - Variable in class org.nmdp.ngs.sra.jaxb.run.ReferenceAssemblyType
-
- standard - Variable in class org.nmdp.ngs.sra.jaxb.sample.ReferenceAssemblyType
-
- standard - Variable in class org.nmdp.ngs.sra.jaxb.study.ReferenceAssemblyType
-
- standard - Variable in class org.nmdp.ngs.sra.jaxb.submission.ReferenceAssemblyType
-
- standardPrograms - Variable in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
- STAR - Static variable in interface org.nmdp.ngs.feature.parser.FeatureParserConstants
-
RegularExpression Id.
- start() - Method in class org.nmdp.ngs.align.BedRecord
-
Return the start for this BED record in 0-based coordinate system, closed open range.
- start() - Method in class org.nmdp.ngs.align.GenewiseExon
-
Return the start of this genewise exon in 1-based coordinate system, fully closed range.
- start - Variable in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
- start - Variable in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
- start - Variable in class org.nmdp.ngs.hml.jaxb.Variant
-
- starts(Iterable<Range<Long>>) - Static method in class org.nmdp.ngs.align.Alignments
-
Return the start/lower endpoints in the specified ranges.
- state - Variable in class org.nmdp.ngs.gtr.jaxb.AddressType
-
- staticFlag - Static variable in class org.nmdp.ngs.feature.parser.SimpleCharStream
-
Whether parser is static.
- status - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabTestType.Regulations.FDARegulatoryClearance
-
- stepIndex - Variable in class org.nmdp.ngs.sra.jaxb.analysis.PipelineType.PipeSection
-
- stepIndex - Variable in class org.nmdp.ngs.sra.jaxb.common.PipelineType.PipeSection
-
- stepIndex - Variable in class org.nmdp.ngs.sra.jaxb.experiment.PipelineType.PipeSection
-
- stepIndex - Variable in class org.nmdp.ngs.sra.jaxb.run.PipelineType.PipeSection
-
- stepIndex - Variable in class org.nmdp.ngs.sra.jaxb.sample.PipelineType.PipeSection
-
- stepIndex - Variable in class org.nmdp.ngs.sra.jaxb.study.PipelineType.PipeSection
-
- stepIndex - Variable in class org.nmdp.ngs.sra.jaxb.submission.PipelineType.PipeSection
-
- strand() - Method in class org.nmdp.ngs.align.BedRecord
-
Return the strand for this BED record, if any
- strand - Variable in class org.nmdp.ngs.hml.jaxb.ConsensusSequenceBlock
-
- strand - Variable in class org.nmdp.ngs.hml.jaxb.ReferenceDatabase.ReferenceSequence
-
- stream(Readable, BedListener) - Static method in class org.nmdp.ngs.align.BedReader
-
Stream zero or more BED records from the specified readable.
- stream(Readable, HspListener) - Static method in class org.nmdp.ngs.align.HspReader
-
Stream zero or more high-scoring segment pairs from the specified readable.
- stream(Readable, VcfStreamListener) - Static method in class org.nmdp.ngs.variant.vcf.StreamingVcfParser
-
Stream the specified readable.
- stream(Readable, VcfStreamListener) - Static method in class org.nmdp.ngs.variant.vcf.VcfReader
-
Stream the specified readable.
- StreamingVcfParser - Class in org.nmdp.ngs.variant.vcf
-
Streaming VCF parser.
- streamInterleaved(Reader, PairedEndListener) - Static method in class org.nmdp.ngs.reads.paired.PairedEndFastqReader
-
- streamInterleaved(Readable, PairedEndListener) - Static method in class org.nmdp.ngs.reads.paired.PairedEndFastqReader
-
Stream the specified interleaved paired end reads.
- streamPaired(Reader, Reader, PairedEndListener) - Static method in class org.nmdp.ngs.reads.paired.PairedEndFastqReader
-
- streamPaired(Readable, Readable, PairedEndListener) - Static method in class org.nmdp.ngs.reads.paired.PairedEndFastqReader
-
Stream the specified paired end reads.
- streetAddress - Variable in class org.nmdp.ngs.gtr.jaxb.OrganizationType
-
- strictness - Variable in class org.nmdp.ngs.feature.VcfFile
-
- STRING - Static variable in class org.nmdp.ngs.feature.VcfFile.Metadata
-
- studies - Variable in class org.nmdp.ngs.sra.jaxb.study.StudySet
-
- study - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
- Study - Class in org.nmdp.ngs.sra.jaxb.study
-
A Study is a container for a sequencing investigation that may comprise multiple experiments.
- Study() - Constructor for class org.nmdp.ngs.sra.jaxb.study.Study
-
- Study.Descriptor - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- Study.Descriptor() - Constructor for class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
- Study.Descriptor.RelatedStudies - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- Study.Descriptor.RelatedStudies() - Constructor for class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.RelatedStudies
-
- Study.Descriptor.RelatedStudies.RelatedStudy - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- Study.Descriptor.RelatedStudies.RelatedStudy() - Constructor for class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.RelatedStudies.RelatedStudy
-
- Study.Descriptor.StudyType - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- Study.Descriptor.StudyType() - Constructor for class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor.StudyType
-
- Study.StudyAttributes - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- Study.StudyAttributes() - Constructor for class org.nmdp.ngs.sra.jaxb.study.Study.StudyAttributes
-
- Study.StudyLinks - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for anonymous complex type.
- Study.StudyLinks() - Constructor for class org.nmdp.ngs.sra.jaxb.study.Study.StudyLinks
-
- studyAbstract - Variable in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
- studyAttributes - Variable in class org.nmdp.ngs.sra.jaxb.study.Study
-
- studyAttributes - Variable in class org.nmdp.ngs.sra.jaxb.study.Study.StudyAttributes
-
- studyDescription - Variable in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
- studyLinks - Variable in class org.nmdp.ngs.sra.jaxb.study.Study
-
- studyLinks - Variable in class org.nmdp.ngs.sra.jaxb.study.Study.StudyLinks
-
- studyName - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
- studyPersons - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType
-
- studyRef - Variable in class org.nmdp.ngs.sra.jaxb.analysis.Analysis
-
- studyRef - Variable in class org.nmdp.ngs.sra.jaxb.experiment.Experiment
-
- StudySet - Class in org.nmdp.ngs.sra.jaxb.study
-
Java class for StudySetType complex type.
- StudySet() - Constructor for class org.nmdp.ngs.sra.jaxb.study.StudySet
-
- studyShortName - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
- studyTitle - Variable in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
- studyType - Variable in class org.nmdp.ngs.gtr.jaxb.GTRLabResearchTestType.Study
-
- studyType - Variable in class org.nmdp.ngs.sra.jaxb.study.Study.Descriptor
-
- StudyType - Enum in org.nmdp.ngs.sra
-
Study type.
- subAmplification - Variable in class org.nmdp.ngs.hml.jaxb.SbtSanger
-
- SubAmplification - Class in org.nmdp.ngs.hml.jaxb
-
Identifies sub-amplification primers.
- SubAmplification() - Constructor for class org.nmdp.ngs.hml.jaxb.SubAmplification
-
- Submission - Class in org.nmdp.ngs.sra.jaxb.submission
-
A Submission type is used to describe an object that contains submission actions to be performed by the archive.
- Submission() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission
-
- Submission.Actions - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions
-
- Submission.Actions.Action - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
- Submission.Actions.Action.Add - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Add() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Add
-
- Submission.Actions.Action.Cancel - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Cancel() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Cancel
-
- Submission.Actions.Action.Hold - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Hold() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Hold
-
- Submission.Actions.Action.Modify - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Modify() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Modify
-
- Submission.Actions.Action.Protect - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Protect() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Protect
-
- Submission.Actions.Action.Release - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Release() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Release
-
- Submission.Actions.Action.Suppress - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Suppress() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Suppress
-
- Submission.Actions.Action.Validate - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Actions.Action.Validate() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action.Validate
-
- Submission.Contacts - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Contacts() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts
-
- Submission.Contacts.Contact - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.Contacts.Contact() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.Contacts.Contact
-
- Submission.SubmissionAttributes - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.SubmissionAttributes() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.SubmissionAttributes
-
- Submission.SubmissionLinks - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for anonymous complex type.
- Submission.SubmissionLinks() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.Submission.SubmissionLinks
-
- submissionAttributes - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
- submissionAttributes - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.SubmissionAttributes
-
- submissionComment - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
- submissionDate - Variable in class org.nmdp.ngs.gtr.jaxb.MeasureTraitType
-
- submissionDate - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
- submissionLinks - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission
-
- submissionLinks - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.SubmissionLinks
-
- submissions - Variable in class org.nmdp.ngs.sra.jaxb.submission.SubmissionSet
-
- SubmissionSet - Class in org.nmdp.ngs.sra.jaxb.submission
-
Java class for SubmissionSetType complex type.
- SubmissionSet() - Constructor for class org.nmdp.ngs.sra.jaxb.submission.SubmissionSet
-
- SubmissionSummaryType - Class in org.nmdp.ngs.gtr.jaxb
-
Java class for SubmissionSummaryType complex type.
- SubmissionSummaryType() - Constructor for class org.nmdp.ngs.gtr.jaxb.SubmissionSummaryType
-
- submitterId - Variable in class org.nmdp.ngs.sra.jaxb.analysis.IdentifierType
-
- submitterId - Variable in class org.nmdp.ngs.sra.jaxb.common.IdentifierType
-
- submitterId - Variable in class org.nmdp.ngs.sra.jaxb.experiment.IdentifierType
-
- submitterId - Variable in class org.nmdp.ngs.sra.jaxb.run.IdentifierType
-
- submitterId - Variable in class org.nmdp.ngs.sra.jaxb.sample.IdentifierType
-
- submitterId - Variable in class org.nmdp.ngs.sra.jaxb.study.IdentifierType
-
- submitterId - Variable in class org.nmdp.ngs.sra.jaxb.submission.IdentifierType
-
- subSpecialty - Variable in class org.nmdp.ngs.gtr.jaxb.PersonType.Certification
-
- SubstitutionMutationStrategy - Class in org.nmdp.ngs.reads.mutation
-
Substitution mutation strategy.
- SubstitutionMutationStrategy(RandomGenerator) - Constructor for class org.nmdp.ngs.reads.mutation.SubstitutionMutationStrategy
-
Create a new substitution mutation strategy.
- suffix - Variable in class org.nmdp.ngs.gtr.jaxb.PersonType.Name
-
- suppress - Variable in class org.nmdp.ngs.sra.jaxb.submission.Submission.Actions.Action
-
- supremum(T, Vertex) - Method in class org.nmdp.ngs.fca.AbstractLattice
-
Find the supremum or least upper bound.
- SwitchTo(int) - Method in class org.nmdp.ngs.feature.parser.FeatureParserTokenManager
-
Switch to specified lex state.
- symbols - Variable in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.Affects
-
- symbols - Variable in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure.FoundIn
-
- symbols - Variable in class org.nmdp.ngs.gtr.jaxb.MeasureSetType.Measure
-
- symbols - Variable in class org.nmdp.ngs.gtr.jaxb.TraitSetType.Trait
-
- synonymSets - Variable in class org.nmdp.ngs.gtr.jaxb.ClinvarPublicSetType
-