Table 1 Accuracy of parameter estimates using the composite-likelihood, iHS, and nSL methods
ParametersComposite likelihoodiHSnSL
RaαStatistical power (%)bEmbedded Image mean ± SDEmbedded Image deviation mean (median)cExact site detected (%)dStatistical power (%)bEmbedded Image deviation mean (median)cExact site detected (%)dStatistical power (%)bEmbedded Image deviation mean (median)cExact site detected (%)d
Using both polymorphic and monomorphic sites
2000100057 (17)1160 ± 6603.68 (1.73)9.23 [10.9]245.67 (2.91)4.92 [5.29]414.72 (2.23)11.1 [13.1]
200086 (36)2070 ± 9204.11 (2.43)10.6 [12.7]636.18 (4.05)3.54 [3.22]635.01 (2.95)9.4 [11.4]
400097 (30)3850 ± 17806.03 (3.92)9.07 [10.7]898.58 (6.09)2.61 [2.23]767.10 (4.45)6.9 [7.0]
4000100035 (16)1290 ± 8402.92 (0.95)15.6 [20.4]9.65.71 (1.80)7.37 [9.00]423.36 (1.21)18.6 [24.5]
200075 (40)2290 ± 10002.51 (1.39)15.9 [19.2]413.98 (2.30)5.46 [6.58]732.77 (1.62)16.3 [17.1]
400094 (48)4030 ± 16103.56 (2.20)13.8 [16.7]785.12 (3.45)3.90 [4.29]873.66 (2.35)12.6 [12.4]
Using only polymorphic sites
400010004.0860 ± 9503.6213.3
2000361630 ± 10103.2113.3
4000823290 ± 18704.9110.3
  • a Scaled recombination rate (4Nr) across the 100-k-long simulated sequence.

  • b Percentages of simulated samples that yield P < 0.001. In parentheses: using an adjusted recombination rate in neutral simulations to yield mean LD identical to that of data to be analyzed.

  • c Mean (median) deviation in kilobases of the estimated location of selection from the true location (x = 50,000): Embedded Image

  • d Percentages of simulated samples for which Embedded Image = 50,000. Those of samples in which the frequency of the beneficial allele is exactly 10 are given in brackets.