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Fig. 2 | BMC Evolutionary Biology

Fig. 2

From: How and how much does RAD-seq bias genetic diversity estimates?

Fig. 2

The relation between πtrue and πRAD in a non neutral model. Black open dots: homogeneous θ values (neutral model, equivalent to Fig. 1). Solid coloured dots: heterogeneous θ values along the genome. Each simulation was run by randomly choosing a reference θ value (θref), which was used to assign different θ values to different genomic regions, with increasing heterogeneity in the three models. Blue dots: Model 1: 70 % of loci with θ1 = θref, 20 % with θ2 = θref /2 and 10 % with θ3 = θref /10; orange dots: Model 2: 70 % of loci with θ1 = θref, 20 % with θ2 = θref /10 and 10 % with θ3 = θref /100; red dots: Model 3: 50 % of loci with θ1 = θref, 40 % with θ2 = θref /10 and 10 % with θ3 = θref /100. Solid lines represent local linear regressions. The figure shows that the underestimation of genetic diversity is stronger when polymorphism is more heterogeneous along the genome

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