Package | Description |
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htsjdk.variant.variantcontext | |
htsjdk.variant.vcf |
Modifier and Type | Method and Description |
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boolean |
VariantContextComparator.isCompatible(java.util.Collection<VCFContigHeaderLine> headerLines)
Returns true if the given header lines are from a file sorted according to this VariantContextComparator.
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Constructor and Description |
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VariantContextComparator(java.util.Collection<VCFContigHeaderLine> headerLines)
Creates a VariantContextComparator from the given VCF contig header lines.
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Modifier and Type | Method and Description |
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java.util.List<VCFContigHeaderLine> |
VCFHeader.getContigLines() |
static java.util.List<VCFContigHeaderLine> |
VCFUtils.makeContigHeaderLines(SAMSequenceDictionary refDict,
java.io.File referenceFile)
Create VCFHeaderLines for each refDict entry, and optionally the assembly if referenceFile != null
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