FractionInformativeReads

The fraction of reads deemed informative over the entire cohort

Category Annotation Modules

VCF Field INFO (variant-level)

Type BetaTestingAnnotation, ReducibleAnnotation

Header definition line
  • INFO=<ID=FractionInformativeReads,Number=1,Type=Float,Description="The fraction of informative reads out of the total reads">

  • Overview

    The FractionInformativeReads annotation produces a single fraction for each site: sum(AD)/sum(DP). The sum in the numerator is over all the samples in the cohort and all the alleles in each sample. The sum in the denominator is over all the samples.

    Caveats

    • This annotation can be generated by HaplotypeCaller, MuTect2 or GenotypeGVCFs (it will not work when called from VariantAnnotator).

    Related annotations

    • DepthPerAlleleBySample displays the number of reads supporting each allele, without calculating the fraction.

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    GATK version 3.8-0-ge9d806836 built at 2017/07/29 01:40:22.