Accuracy of SupportMix. Accuracy of SupportMix ancestry assignments for in silico generated admixed populations. (A) Accuracy of ancestry assignment for two-way admixture between all HGDP populations (with more than 10 sampled individuals) using SupportMix (blue dots) and for a subset of 7 populations listed in legend using LAMP (red dots with the corresponding SupportMix results circled in red). Each in silico admixed population is plotted on the x-axis by the level of populations structure between the two ancestral populations as measured by fixation index, F
. (B) The effects of time since admixture, measured in generations, on SupportMix accuracy for 7 populations. (C) Effect on accuracy of uncertainty in generations since admixture, where g′= 5 was the number of generations used to simulate the populations and g was the parameter used in SupportMix, which varied between .25 and 100 generations. (D) Effect of window size used on SupportMix accuracy of ancestry assignments.