Fig. 3

Imputation accuracy on chromosome 19, among different strategies for selecting 3 individuals for WGS. Comparison of imputation accuracy among 3 different strategies for selecting 3 individuals for WGS within the 16-member pedigree: “Bottom of Pedigree” (subjects M, P, K), “Founders” (subjects B, C, D), and “GIGI-Pick” (B, H, J). Imputation of an optimal set of dense markers was conducted for chromosome 19 from the 3 individuals with WGS, into the 13 recipient individuals with GBS data, using the GIGI imputation algorithm with the “Most-Likely” (A) and “Threshold” (B) genotype calling methods. The corresponding fraction of markers imputed are shown for “Most-Likely” (C) and “Threshold” (D) methods. Circles denote individual animals as indicated in the legend; we note that not every individual may be distinguished in these graphs due to overlapping values