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Figure 6 | BMC Bioinformatics

Figure 6

From: MTML-msBayes: Approximate Bayesian comparative phylogeographic inference from multiple taxa and multiple loci with rate heterogeneity

Figure 6

RMSE: ABC algorithm validation given different levels of assumed and known migration rates and D m = π b . RMSE (root mean square error) across 100 estimates of parameter values given 100 PODS (pseudo observed data sets) simulated with known parameter values. Panel A corresponds to estimates of E(τ) and panel B corresponds to estimates of Ω. The error bars depict 2 × SD (standard deviation) of the RMSE across each set of 100 estimates. For all PODS, Ψ (number divergence times across five taxon-pairs) is drawn from its discrete uniform hyper-prior ranging between 1 (simultaneous divergence) and 5 (the number of taxon-pairs). PODS and corresponding priors were simulated given 16 loci each from 5 taxon-pairs. Three different hyper-priors were used with respect to post-divergence migration rates as well with simulating PODS (migration rate Nm = 0, 0-1, and 0-10 migrants per generation where migration rate varies independently across taxon-pairs within each 5 taxon-pair data set). Each RMSE is calculated from the 100 true hyper-parameter values (E(τ) and Ω) and the corresponding 100 posterior mode estimates (mode from the 500 accepted points out of a total 1,500,000 draws from the hyper-prior using ABC with local linear regression and a summary statistic vector D m that only included mean values of π b across loci from every taxon-pair).

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