Fig. 2.

We simulate the following proportion of causal variants $p_{00}=0.97,\hspace{0.17em}{p}_{10}=0.01,\hspace{0.17em}{p}_{01}=0.01,\hspace{0.17em}{p}_{11}=0.01$ and vary the heritability ($h_1^{\mathrm{2}}=h_2^{\mathrm{2}}$) while fixing $\rho ,N_1,N_2,M$. We vary the heritability from.01 to 5e−7 and plot the estimated proportion of non-causal variants (a), proportion of causal variants for trait 1 (b), proportion of causal variants for trait 2 (c) and proportion of shared causal variants (d). We note that as the heritability goes down, the data become less informative and the estimates reflect the prior