TABLE 6.

Detection power vs. false positives for sweeps occurring within a bottleneck

	Method
Bottleneck scenario	HMMA	HMMB	CLsw	SF
δ = 0.04	0.84/0.22 (= 3.82)	0.75/0.38 (= 1.97)	0.92/0.33 (= 2.79)	0.66/0.26 (= 2.54)
δ = 0.2	0.04/0.17 (= 0.23)	0.02/0.07 (= 0.29)	0.65/0.48 (= 1.35)	0.23/0.46 (= 0.50)

Power of HMMA, HMMB, CLsw, and SweepFinder for detecting a sweep of intensity α = 300 that occurred during a bottleneck and false positive rate obtained for the same bottleneck scenario without sweep are shown. The bottleneck scenarios considered here were chosen from among the ones presented in Table 5, with t = 0.002 and d = 0.1. To distinguish true sweep signals from false ones, we count as true signals only those sweep windows whose distance from the actual selected site is <10 kb. The false positive rates are taken from Table 5. The results are displayed in the form “power”/“false positive rate” (= ratio).