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DepthPerSampleHC

The depth of coverage for informative reads for each sample.

Category Variant Annotations

VCF Field FORMAT (sample genotype-level)


Overview

An informative read is defined as one from which the allele it carries can be easily distinguished. An example of a case where a read might be uninformative is where it only partially overlaps a short tandem repeat and it is not clear whether the read contains the reference allele or e.g. an extra repeat. The depth here is the sum of the informative reads at this site as determined by the Haplotype Caller; as such it can only be calculated and generated through the Haplotype Caller (it will not work when run through the Variant Annotator). This calculation is not perfect but it is a pretty good proxy for depth and it does match the values in the AD field (i.e., sum(AD) = DP).

See also Guide Index | Tool Documentation Index | Support Forum

GATK version 3.1-1-g07a4bf8 built at 2014/03/18 07:00:36. GTD: NA