| Allele |
Immutable representation of an allele.
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| CommonInfo |
Common utility routines for VariantContext and Genotype
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| FastGenotype |
This class encompasses all the basic information about a genotype.
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| Genotype |
This class encompasses all the basic information about a genotype.
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| GenotypeBuilder |
A builder class for genotypes
Provides convenience setter methods for all of the Genotype field
values.
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| GenotypeJEXLContext |
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| GenotypeLikelihoods |
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| GenotypeLikelihoods.GenotypeLikelihoodsAllelePair |
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| GenotypesContext |
Represents an ordered collection of Genotype objects
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| LazyGenotypesContext |
Lazy-loading GenotypesContext.
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| LazyGenotypesContext.LazyData |
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| VariantContext |
High-level overview
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| VariantContextBuilder |
Builder class for VariantContext.
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| VariantContextComparator |
A Comparator that orders VariantContexts by the ordering of the contigs/chromosomes in the List
provided at construction time, then by start position with each contig/chromosome.
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| VariantContextUtils |
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| VariantContextUtils.JexlVCMatchExp |
A simple but common wrapper for matching VariantContext objects using JEXL expressions |