Table 4. Empirical type I errors from 10 000 simulations, for 100 cases and 100 controls, and p = 0.5.

		Using observed     counts	Using estimated counts
αa	σeb	T1	Test	Tadj
0.10	0.01	0.099	0.113	0.093
	0.025	0.098	0.180	0.094
	0.05	0.100	0.345	0.102
0.05	0.01	0.051	0.060	0.048
	0.025	0.051	0.112	0.053
	0.05	0.051	0.264	0.054
0.01	0.01	0.011	0.015	0.011
	0.025	0.011	0.039	0.011
	0.05	0.011	0.144	0.011

^aNominal type I error.

^bSEM of estimated allele frequency.

T₁ χ² test on observed counts.

T_est unadjusted test on estimated counts.

T_adj adjusted test on estimated counts.