FastTree
FastTree is a software tool for constructing phylogenetic trees using approximately maximum likelihood. The FastTree algorithm uses nearest-neighbor interchanges (NNIs), minimum-evolution criterion, minimum-evolution subtree-pruning-regrafting (SPRs), maximum-likelihood NNIs, heuristics, and rate of evolution estimation.
Topic
Phylogenetics;Sequence analysis
Detail
Operation: Phylogenetic tree generation (from molecular sequences);Phylogenetic tree generation (maximum likelihood and Bayesian methods)
Software interface: Command-line user interface
Language: C
License: GNU General Public License >=2
Cost: Free
Version name: 2.1.11
Credit: US Department of Energy Genomics.
Input: -
Output: -
Contact: fasttree@microbesonline.org
Collection: -
Maturity: Mature
Publications
- FastTree: computing large minimum evolution trees with profiles instead of a distance matrix.
- Price MN, Dehal PS, Arkin AP. FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol Biol Evol. 2009 Jul;26(7):1641-50. doi: 10.1093/molbev/msp077. Epub 2009 Apr 17. PMID: 19377059; PMCID: PMC2693737.
- https://doi.org/10.1093/molbev/msp077
- PMID: 19377059
- PMC: PMC2693737
- FastTree 2--approximately maximum-likelihood trees for large alignments.
- Price MN, Dehal PS, Arkin AP (2010). FastTree 2--approximately maximum-likelihood trees for large alignments. PLoS One 5(3): e9490.
- https://doi.org/10.1371/journal.pone.0009490
- PMID: 20224823
- PMC: PMC2835736
Download and documentation
Documentation: http://www.microbesonline.org/fasttree/#How
Home page: http://www.microbesonline.org/fasttree/
< Back to DB search