Metrics
Category Metrics
Overview
A collection of metrics relating to snps and indels within a variant-calling file (VCF) for a given sample.This table summarizes the values that are specific to this metric.
| Metric | Summary |
|---|---|
| SAMPLE_ALIAS |
The name of the sample being assayed |
| HET_HOMVAR_RATIO |
(count of hets)/(count of homozygous non-ref) for this sample |
| PCT_GQ0_VARIANTS |
The percentage of variants in a particular sample that have a GQ score of 0. |
| TOTAL_GQ0_VARIANTS |
The total number of variants in a particular sample that have a GQ score of 0. |
| TOTAL_HET_DEPTH |
total number of reads (from AD field) for passing bi-allelic SNP hets for this sample |
GATK version 4.6.2.0 built at Sun, 13 Apr 2025 15:34:15 -0400.
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