Table 2.

Average empirical FDR, FNR, and ATP at nominal FDR = 0.05.

METHOD	PAIRED ONLY	TWO-SAMPLE	FM-PS	Reg-PS
n1 = 10, n2 = 24, n3 = 24
FDR	0.0304	0.0822	0.0285	0.0256
FNR	0.5439	0.2121	0.4649	0.4478
ATP	3457	13722	6908	7527
n1 = 20, n2 = 19, n3 = 19
FDR	0.0322	0.0625	0.0256	0.0247
FNR	0.4443	0.1897	0.4053	0.3810
ATP	7690	14014	8941	9568
n1 = 30, n2 = 14, n3 = 14
FDR	0.0352	0.0537	0.0393	0.0333
FNR	0.3512	0.1632	0.3241	0.2948
ATP	10422	14395	11183	11715
n1 = 40, n2 = 9, n3 = 9
FDR	0.0354	0.0648	0.0404	0.0534
FNR	0.2404	0.1193	0.2269	0.1803
ATP	12955	15028	13201	13973