PhyML 3.0: new algorithms, methods and utilities

Please cite:
"New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0."
Guindon S., Dufayard J.F., Lefort V., Anisimova M., Hordijk W., Gascuel O.
Systematic Biology, 59(3):307-21, 2010.

Get the latest PhyML releases from GitHub.

PhyML-3.1 (released in 2012):

Supplementary versions

Previous versions

These versions of PhyML contain some bugs which were corrected into the PhyML 3.0 version.
PhyML 3.0 was also greatly optimized and provides new functionalities.

Unofficial versions