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. 2006 Nov;174(3):1517–1528. doi: 10.1534/genetics.106.060723

TABLE 7.

Performance for models with nonuniform crossing over and nonuniform gene conversion with phased data

γa ρa g(γ)b g(ρ)b B(γ)c B(ρ)c E(Inline graphic)d E(Inline graphic)d V(γ)e V(ρ)e
Hudson's composite-likelihood method
20 20 0.294 0.914 0.844 0.524 9.419 21.40 1.020 0.627
60 20 0.332 0.868 0.835 0.465 24.279 23.49 0.803 0.746
80 20 0.340 0.902 0.892 0.427 32.260 23.98 0.746 0.732
20 40 0.210 0.900 0.874 0.535 8.120 39.48 1.136 0.464
40 40 0.260 0.878 0.881 0.545 13.820 40.50 0.906 0.493
Summary statistics method
20 20 0.486 0.946 0.704 0.553 17.78 20.80 1.397 0.596
60 20 0.528 0.920 0.842 0.489 34.52 22.66 0.664 0.683
80 20 0.494 0.910 0.879 0.484 42.10 22.80 0.635 0.696
20 40 0.418 0.882 0.724 0.729 16.08 32.94 1.331 0.438
40 40 0.454 0.912 0.835 0.698 22.18 34.56 0.828 0.426
a

γ and ρ denote the true values of the gene-conversion and crossing-over rates under which 500 data sets were simulated.

b

g(γ) and g(ρ) denote the fraction of the data sets for which the estimates of gene conversion (Inline graphic) and crossing over (Inline graphic) lie within a factor of 2 of the true values (i.e., γ and ρ), respectively.

c

B(γ) and B(ρ) denote the fraction of times the estimates of gene conversion and crossing over are lower than the true values, given that they are not equal to the true values.

d

E(Inline graphic) and E(Inline graphic) denote the mean of the estimates of gene-conversion and crossing-over rates.

e

V(γ) and V(ρ) denote the root mean square relative error for the estimates.