TABLE 4.

Comparison of log Bayes factors (marginal log-likelihood differences) approximated by thermodynamic integration and harmonic mean estimator, for different models and different numbers of loci

	LBF for modela						Rank of model
	1	2	3	4	5	6	1st	2nd	3rd	4th	5th	6th
Thermodynamic integration
Loci
1	0	−10	−86	−583	−594	−253	1	2	3	6	4	5
2	0	−552	−1,946	−3,167	−3,338	−467	1	6	2	3	4	5
5	0	−697	−2,432	−4,757	−4,826	−542	1	6	2	3	4	5
10	0	−1,136	−4,266	−8,566	−8,352	−2,328	1	2	6	3	5	4
20	0	−2,072	−5,914	−12,913	−12,379	−4,835	1	2	6	3	5	4
50	0	−4,829	−14,683	−30,147	−28,439	−15,245	1	2	3	6	5	4
Harmonic mean estimator
1	0	−7	−20	−29	−28	−35	1	2	3	5	4	6
2	0	−76	−83	−123	−70	−168	1	5	2	3	4	6
5	0	−124	−133	−215	−160	−308	1	2	3	5	4	6
10	0	−236	−201	−430	−161	−420	1	5	3	2	6	4
20	0	−438	−565	−1,085	−453	−943	1	2	5	3	6	4
50	0	−819	−1,266	−2,613	−1,266	−2,723	1	2	5	3	4	6

Model 1 was used to simulate the data and is the reference model.

^aModel numbers are specified in Table 1.