Figure 4
From: Empirical evaluation of variant calling accuracy using ultra-deep whole-genome sequencing data
Comparison of genotype concordances with SNP microarray. The x-axis shows the depth of each WGS data in a logarithmic scale. The y-axis corresponds to each metric of Fig. 3B. (A) CR based on depths. With the settings of HC and VQSR (blue line), >13.7× depth achieved as high as >99% of concordances (ocher broken line), whereas HC and HF (the red line), >21.9× depth achieved. (B) FPR based on depths. (C) FNR based on depths. (D) NTPR based on depths. With both filtration procedures of HF and VQSR, >9.8× depth achieved as high as >99% of NTPR (ocher line).
