Fig 6. Off-target sequencing data improve kinship estimation in WES of 762 Chinese and Malays.
In each panel, we plotted the difference between sequence-based estimates and array-based estimates (ϕseq–ϕarray, y-axis) versus the array-based estimates from PC-Relate (ϕarray, x-axis). Colored circles represent kinship coefficients between two individuals and different types of relatedness were determined in Fig 2. Grey crosses represent self-kinship coefficients. The analyses were based on the BEAGLE+1KG3 call set at SNPs overlapping with the SGVP dataset. We evaluated SEEKIN (A, C) and PC-Relate (B, D) using 40,824 SNPs within the WES target regions or 1,054,229 SNPs across both target and off-target regions.