Table 3.

Power (casual SNP randomly distributed in the large LD block)

p value threshold	No adjustment	Known strata	Standard PCA	Shrinkage PCA	Thinning PCA	Regression PCA
10−5	0.973	0.970	0.296	0.967	0.969	0.967
10−6	0.923	0.917	0.155	0.909	0.914	0.909
5 × 10−7	0.902	0.894	0.125	0.884	0.892	0.885
10−7	0.835	0.827	0.074	0.814	0.824	0.816

Columns 2–7: Each table entry represents the proportion of 10,000 simulations in which the causal SNP was rejected at the given p value threshold.