TABLE IV.

Percentages of replicates that identified the two rare haplotypes as the associated ones

		rGLM				hapassoc
n	Setting	β1	β2	β1&β2	β1/β2	β1	β2	β1&β2	β1/β2
200	1	24.4	39.8	22.6	41.6	0.0	2.2	0.0	2.2
	2	13.6	31.0	11.6	33.0	0.0	0.6	0.0	0.6
	3	11.0	27.8	9.2	29.6	0.0	0.4	0.0	0.4
400	1	45.4	62.6	43.2	64.8	12.4	33.2	5.4	40.2
	2	33.6	52.4	30.2	55.8	10.2	27.6	5.6	32.2
	3	24.8	46.6	22.4	49.0	11.0	22.2	5.6	27.6
1000	1	82.4	92.8	81.6	93.6	28.4	58.2	18.6	68.0
	2	69.6	90.8	68.6	91.8	16.4	36.6	7.8	45.2
	3	68.6	89.6	66.2	92.0	12.2	41.0	5.2	48.0