phangorn
Phylogenetic Reconstruction and Analysis
Allows for estimation of phylogenetic trees and networks using Maximum Likelihood, Maximum Parsimony, distance methods and Hadamard conjugation (Schliep 2011). Offers methods for tree comparison, model selection and visualization of phylogenetic networks as described in Schliep et al. (2017).
README
The following persons and institutions helped in the development of phangorn at one stage or another. Emmanuel Paradis and all the other authors of the APE package. Tim White for provinding some C-code to compute the Hadamard distances. Bennet McComish for providing the allTrees function. Francois-Joiseph Lapointe for feedback on clans and clips. Further thanks to all the user that send bug reports/fixes and have helped to improve this package. Financial support was provided by the Alan Wilson Centre of Molecular Ecology and Evolution and the Muséum national d'Histoire naturelle and Universidade de Vigo.
Versions across snapshots
| Version | Repository | File | Size |
|---|---|---|---|
2.12.1 |
rolling linux/jammy R-4.5 | phangorn_2.12.1.tar.gz |
2.5 MiB |
2.12.1 |
rolling linux/noble R-4.5 | phangorn_2.12.1.tar.gz |
2.5 MiB |
2.12.1 |
rolling source/ R- | phangorn_2.12.1.tar.gz |
1.8 MiB |
2.12.1 |
latest linux/jammy R-4.5 | phangorn_2.12.1.tar.gz |
2.5 MiB |
2.12.1 |
latest linux/noble R-4.5 | phangorn_2.12.1.tar.gz |
2.5 MiB |
2.12.1 |
latest source/ R- | phangorn_2.12.1.tar.gz |
1.8 MiB |
2.12.1 |
2026-04-26 source/ R- | phangorn_2.12.1.tar.gz |
1.8 MiB |
2.12.1 |
2026-04-23 source/ R- | phangorn_2.12.1.tar.gz |
1.8 MiB |
2.12.1 |
2026-04-09 windows/windows R-4.5 | phangorn_2.12.1.zip |
2.9 MiB |
2.12.1 |
2025-04-20 source/ R- | phangorn_2.12.1.tar.gz |
1.8 MiB |