| Package | Description |
|---|---|
| org.nmdp.ngs.align |
Sequence alignment.
|
| org.nmdp.ngs.fca |
Formal concept analysis for genomics.
|
| org.nmdp.ngs.feature |
Features.
|
| org.nmdp.ngs.feature.parser |
Feature parser.
|
| org.nmdp.ngs.gtr |
Mapping for GTR XSDs.
|
| org.nmdp.ngs.gtr.jaxb |
JAXB mapping for GTR XSDs.
|
| org.nmdp.ngs.hml |
Mapping for HML XSDs.
|
| org.nmdp.ngs.hml.jaxb |
JAXB mapping for HML XSDs.
|
| org.nmdp.ngs.hml.rules |
HML validation rules.
|
| org.nmdp.ngs.range |
Guava ranges for genomics.
|
| org.nmdp.ngs.range.rtree |
Range R-Tree/R*-tree.
|
| org.nmdp.ngs.range.tree |
Range tree.
|
| org.nmdp.ngs.reads |
Next generation sequencing (NGS/HTS) reads.
|
| org.nmdp.ngs.reads.coverage |
Implementation of the CoverageStrategy interface.
|
| org.nmdp.ngs.reads.mutation |
Implementation of the MutationStrategy interface.
|
| org.nmdp.ngs.reads.paired |
Paired end FASTQ reads.
|
| org.nmdp.ngs.reads.quality |
Implementation of the QualityStrategy interface.
|
| org.nmdp.ngs.sra |
Mapping for SRA submission XSDs.
|
| org.nmdp.ngs.sra.jaxb |
JAXB mapping for SRA submission XSDs.
|
| org.nmdp.ngs.sra.jaxb.analysis |
JAXB mapping for SRA analysis XSD.
|
| org.nmdp.ngs.sra.jaxb.common |
JAXB mapping for SRA common XSD.
|
| org.nmdp.ngs.sra.jaxb.experiment |
JAXB mapping for SRA experiment XSD.
|
| org.nmdp.ngs.sra.jaxb.run |
JAXB mapping for SRA run XSD.
|
| org.nmdp.ngs.sra.jaxb.sample |
JAXB mapping for SRA sample XSD.
|
| org.nmdp.ngs.sra.jaxb.study |
JAXB mapping for SRA study XSD.
|
| org.nmdp.ngs.sra.jaxb.submission |
JAXB mapping for SRA submission XSD.
|
| org.nmdp.ngs.tools |
Next generation sequencing (NGS/HTS) command line tools.
|
| org.nmdp.ngs.variant.vcf |
Low-level VCF file parsing.
|
| org.nmdp.ngs.xjc.plugins |
XJC plugins.
|
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