Figure 3

Phylogenetic error as a function of mutation rate for varying dataset sizes. Each plot shows the phylogenetic errors for inferences from our direct inference method (black circles), indirect inference using fastPHASE (light grey triangles), and indirect inference using haplotyper (dark grey squares) as a function of the mutation rate θ. Plots are provided for two window sizes (5 and 10 SNPs) and for two population sizes (30 and 60 haplotypes). Each data point in the plot was computed by running each algorithm over 200 randomly generated data-sets, (a) window size 5, 30 haplotypes. (b) window size 5, 60 haplotypes. (c) window size 10, 30 haplotypes. (d) window size 10, 60 haplotypes.