Appendix 1—table 2. Levels of spurious signal of discordant evolution, inferred in the simulated dataset with no epistasis by four variants of the method.
Number of pairs, detected under p-value threshold 10-4, and maximal threshold on estimated FDR that allows to avoid false discoveries are shown.
| Model | #FP | min p-value | Maximal FDR threshold for #FP = 0 | |
|---|---|---|---|---|
| consider alleles | shuffle mutations in fgr. only | 2 | <1e-4 | 0,2 |
| shuffle mutations both in bgr. and fgr. | 19 | <1e-4 | 0,026 | |
| ignore alleles | shuffle mutations in fgr. only | 4 | <1e-4 | 0,125 |
| shuffle mutations both in bgr. and fgr. | 16 | <1e-4 | 0,031 | |