Showing docs for version 3.6-0 | The latest version is 4.1.4.0


AlleleCountBySample

Allele count and frequency expectation per sample

Category Annotation Modules

VCF Field FORMAT (sample genotype-level)

Header definition line
  • FORMAT=<ID=MLPSAC,Number=A,Type=Integer,Description="Maximum likelihood expectation (MLE) for the alternate allele count, in the same order as listed, for each individual sample">
  • FORMAT=<ID=MLPSAF,Number=A,Type=Float,Description="Maximum likelihood expectation (MLE) for the alternate allele fraction, in the same order as listed, for each individual sample">

  • Overview

    This annotation calculates the maximum likelihood (ML) number and frequency of alternate alleles for each individual sample at a site. In essence, it is equivalent to calculating the sum of "1"s in a genotype (for a biallelic site).


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    GATK version 3.6-0-g89b7209 built at 2017/02/09 12:52:48.