FastME 2.0: a comprehensive, accurate and fast distance-based phylogeny inference program.
Lefort V., Desper R., Gascuel O.
FastME provides distance algorithms to infer phylogenies. FastME is based on balanced minimum evolution, which is the very principle of NJ. FastME improves over NJ by performing topological moves using fast, sophisticated algorithms. The first version of FastME only included Nearest Neighbor Interchange (NNI). The new 2.0 version also includes Subtree Pruning and Regrafting (SPR), while remaining as fast as NJ and providing a number of facilities: distance estimation for DNA and proteins with various models and options, bootstrapping, and parallel computations.
Files in the package
- Executable files for Linux, Mac OS and Windows systems. These binaries use PHYLIP like or command line interface, options are described in the user's quide.
- Source code.
- Example datasets.
- The manual (pdf format).
Copyright 2002-2007 Rick Desper, Olivier Gascuel
Copyright 2007-2015 Olivier Gascuel, Stephane Guindon, Vincent Lefort
FastME is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
FastME is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
See the GNU General Public License
for more details.