Fig. 3
From: Improving variant calling using population data and deep learning
HG003 WGS variant calling results, annotated with 1000Genomes allele frequencies. a Variants are stratified by commonness. Left: common variants (allele frequency >0.01), right: rare variants (allele frequency \(\le\) 0.01). b, c Caller-specific errors by DeepVariant and DeepVariant-AF using 35x HG003 WGS data. Errors specific to DeepVariant are considered to be population-resolved, and the others are considered to be population-induced. b False positives (DeepVariant: 2085, DeepVariant-AF: 1070), c false negatives (DeepVariant: 2284, DeepVariant-AF: 1952)