Table 2.

Empirical power estimates in the absence of population substructure

	ρ	Q	D '	MMASTOR	MFBAT	MFQLS
Quantitative phenotypes	0.2	2	0	0.5180	0.2025	0.5830
		2	0.5	0.7235	0.3750	0.7805
		5	0	0.7800	0.3855	0.7870
		5	0.5	0.9200	0.6430	0.9240
	0.5	2	0	0.4915	0.1655	0.5400
		2	0.5	0.6785	0.3340	0.7505
		5	0	0.7015	0.3020	0.7350
		5	0.5	0.8725	0.5405	0.8885
Dichotomous phenotypes	ρ	Q	D'	MMQLS	MFBAT	MFQLS
	0.2	2	0	0.2015	0.0530	0.2340
		2	0.5	0.3050	0.1070	0.3470
		5	0	0.3205	0.0995	0.3710
		5	0.5	0.6215	0.2460	0.6660
	0.5	2	0	0.1795	0.0535	0.2130
		2	0.5	0.2945	0.0915	0.3270
		5	0	0.2670	0.0910	0.3085
		5	0.5	0.5200	0.2130	0.5900

The empirical power was estimated using 2,000 replicates at the 0.005 significance level. We assumed that the number of markers was two, and that their minor allele frequencies were 0.2.