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samtools
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htsjdk
A Java API for high-throughput sequencing data (HTS) formats.
http://samtools.github.io/htsjdk/
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Expose the ability to encode a Genotoype into a GT field
#1648
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lbergelson
closed
1 year ago
lbergelson
commented
1 year ago
Expose two public methods in VCFEncoder writeGtField and encodeGtField
Supports
https://github.com/broadinstitute/gatk/issues/8160
but seems like a useful thing to be able to do in general
minor breaking change in VCFEncoder, made methods formatVCFField and buildAlleleStrings static It is unlikely anyone overrides either of these methods so it should not be a problem.