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FastTree is more accurate than PhyML 3 with default settings, and much more accurate than the distance-matrix methods that are traditionally used for large alignments. FastTree uses the Jukes-Cantor or generalized time-reversible (GTR) models of nucleotide evolution and the JTT (Jones-Taylor-Thornton 1992) model of amino acid evolution. To account for the varying rates of evolution across sites, FastTree uses a single rate for each site (the "CAT" approximation). To quickly estimate the reliability of each split in the tree, FastTree computes local support values with the Shimodaira-Hasegawa test (these are the same as PhyML 3's "SH-like local supports").
This package contains a single threaded version (fasttree) and a parallel version which uses OpenMP (fasttreMP).
fasttree(1) User Commands fasttree(1) NAME fasttree - create phylogenetic trees from alignments of nu‐ cleotide or protein sequences DESCRIPTION fasttree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. It handles alignments with up to a million of sequences i more»
fasttreeMP(1) User Commands fasttreeMP(1) NAME fasttreeMP - create phylogenetic trees from alignments of nu‐ cleotide or protein sequences (openMP version) DESCRIPTION fasttreeMP infers approximately-maximum-likelihood phyloge‐ netic trees from alignments of nucleotide or protein sequences. It handles alignments with more»
fasttree (2.1.4-1) unstable; urgency=low * Initial release (Closes: #677648) -- Thorsten Alteholz <firstname.lastname@example.org> Fri, 15 Jun 2012 19:52:56 +0200
Version 2.1.4: July 28, 2011 Added the -quote option (thanks to Samuel Shepard at the CDC) Added more»
Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: FastTree So more»