Posterior means and 95% HPD CIs for the 16 parameters in the MSC model on species tree 1 (fig. 7) in analyses of the gibbon datasets under different clock models. Estimates of s and s are multiplied by . Each panel includes two replicate runs under six clock models as in figure 8, specified by (1) clock = 1 (strict clock, one rate for all loci); (2) locusrate = 1 0 0 5 iid, clock = 1 (strict clock, i.i.d. rates among loci); (3) locusrate = 1 0 0 5 iid, clock = 2 10 100 5 iid LN (clock 2, i.i.d. prior for and among loci, and log-normal kernel); (4) locusrate = 1 0 0 5 iid, clock = 2 10 100 5 iid G (clock 2, i.i.d. prior for and among loci, and gamma kernel); (5) locusrate = 1 0 0 5 dir, clock = 2 10 100 5 dir LN (clock 2, dir prior for and among loci, and log-normal kernel); (6) locusrate = 1 0 0 5 dir, clock = 2 10 100 5 dir G (clock 2, dir prior for and among loci, and gamma kernel). The panel for shows two replicate runs for each of the four clock-2 analyses.
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