Figure 3.

Coefficient of variation of $N_{\mathrm{e}}\left(P\right)$ under plan I for various parameter values. Neutral Wright–Fisher simulations were performed with various combinations of the parameters: effective population size ($N_{\mathrm{e}}=100,\hspace{0.5em}500,\hspace{0.5em}1000$ diploid individuals), pool size ($S=100,50$), and coverage ($R=150,\hspace{0.5em}100,\hspace{0.5em}50$). $N_{\mathrm{e}}$ was estimated with $N_{\mathrm{e}}\left(P\right)$ under plan I, using $n=2000$ SNPs. $S=N$ indicates scenarios when the whole population is sequenced as a single pool. For all simulations, we assumed $N=N_{\mathrm{e}}.$ Each value is calculated over 100 simulations. When the coefficient of variation exceeds one, the inset shows the actual value.