| AsyncVariantContextWriter |
AsyncVariantContextWriter that can be wrapped around an underlying AsyncVariantContextWriter to provide asynchronous output.
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| BCF2Encoder |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
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| BCF2FieldEncoder |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
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| BCF2FieldEncoder.AtomicInt |
Specialized int encoder for atomic (non-list) integers
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| BCF2FieldEncoder.Flag |
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| BCF2FieldEncoder.Float |
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| BCF2FieldEncoder.GenericInts |
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| BCF2FieldEncoder.IntArray |
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| BCF2FieldEncoder.StringOrCharacter |
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| BCF2FieldWriter |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
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| BCF2FieldWriter.FTGenotypesWriter |
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| BCF2FieldWriter.GenericSiteWriter |
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| BCF2FieldWriter.GenotypesWriter |
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| BCF2FieldWriter.GTWriter |
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| BCF2FieldWriter.IGFGenotypesWriter |
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| BCF2FieldWriter.IntegerTypeGenotypesWriter |
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| BCF2FieldWriter.SiteWriter |
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| BCF2FieldWriter.StaticallyTypeGenotypesWriter |
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| BCF2FieldWriterManager |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
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| IntGenotypeFieldAccessors |
A convenient way to provide a single view on the many int and int[] field values we work with,
for writing out the values.
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| IntGenotypeFieldAccessors.Accessor |
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| IntGenotypeFieldAccessors.ADAccessor |
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| IntGenotypeFieldAccessors.DPAccessor |
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| IntGenotypeFieldAccessors.GQAccessor |
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| IntGenotypeFieldAccessors.PLAccessor |
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| SortingVariantContextWriter |
this class writes VCF files, allowing records to be passed in unsorted (up to a certain genomic distance away)
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| VariantContextWriterBuilder |
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| VariantContextWriterFactory |
Deprecated
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