Comparison of PVE estimates from LMM (blue), BVSR (red), and BSLMM (purple) in two simulation scenarios.

<p>The x-axis show the number of causal SNPs (Scenario I) or the number of medium/small effect SNPs (Scenario II). <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1003264#s3" target="_blank">Results</a> are based on 20 replicates in each case. (A) (true PVE = 0.2) and (C) (true PVE = 0.6) show RMSE of PVE estimates. (B) (true PVE = 0.2) and (D) (true PVE = 0.6) show boxplots of PVE estimates, where the true PVE is shown as a horizontal line. Notice a break point on the y-axis in (C).