Figure 6.—

The effect of selective sweeps on estimates of the recombination rate. For data sets previously simulated with a selective sweep (the position of which is indicated by the vertical bar) and constant recombination rate (R = 10; indicated by the dotted line) (Reed and Tishkoff 2005), a model of variable rate recombination was fitted using the reversible-jump MCMC method of McVean et al. (2004), using a block penalty of 5. Four series of data sets were analyzed, each of 100 replicates, with S = 4N_es = 10, 100, 177.8, and 562.3, respectively (θ = 10 and n = 100 for each). Each chart shows the median (solid line) and quartiles (shaded lines) of the distribution of the estimated rate. In no case is there a tendency to overestimate the recombination rate.