OptM
Estimating the Optimal Number of Migration Edges from 'Treemix'
The popular population genetic software 'Treemix' by 'Pickrell and Pritchard' (2012) <DOI:10.1371/journal.pgen.1002967> estimates the number of migration edges on a population tree. However, it can be difficult to determine the number of migration edges to include. Previously, it was customary to stop adding migration edges when 99.8% of variation in the data was explained, but 'OptM' automates this process using an ad hoc statistic based on the second-order rate of change in the log likelihood. 'OptM' also has added functionality for various threshold modeling to compare with the ad hoc statistic.
Versions across snapshots
| Version | Repository | File | Size |
|---|---|---|---|
0.1.9 |
rolling linux/jammy R-4.5 | OptM_0.1.9.tar.gz |
212.5 KiB |
0.1.9 |
rolling linux/noble R-4.5 | OptM_0.1.9.tar.gz |
212.4 KiB |
0.1.9 |
rolling source/ R- | OptM_0.1.9.tar.gz |
266.1 KiB |
0.1.9 |
latest linux/jammy R-4.5 | OptM_0.1.9.tar.gz |
212.5 KiB |
0.1.9 |
latest linux/noble R-4.5 | OptM_0.1.9.tar.gz |
212.4 KiB |
0.1.9 |
latest source/ R- | OptM_0.1.9.tar.gz |
266.1 KiB |
0.1.9 |
2026-04-26 source/ R- | OptM_0.1.9.tar.gz |
266.1 KiB |
0.1.9 |
2026-04-23 source/ R- | OptM_0.1.9.tar.gz |
266.1 KiB |
0.1.9 |
2026-04-09 windows/windows R-4.5 | OptM_0.1.9.zip |
390.9 KiB |
0.1.8 |
2025-04-20 source/ R- | OptM_0.1.8.tar.gz |
265.9 KiB |