Table 1.

Performance comparison in null simulation

			Shrinkage Parameter
			Approximate test				Permutation test
			0.1	1	10	100	0.1	1	10	100
Individuals	SNPs	Outcome
500	20	Continuous	0.066	0.066	0.066	0.075	0.066	0.066	0.066	0.075
		Binary	0.021	0.021	0.041	0.067	0.027	0.027	0.033	0.052
1000	1000	Continuous	0.050	0.049	0.050	0.046	0.051	0.052	0.050	0.046
		Binary	0.118	0.092	0.066	0.053	0.054	0.056	0.053	0.051

False positive rates at the nominal significance threshold α = 0.05 in null datasets. In each scenario, results are averaged over ten replicates