Bug#677648: ITP: fasttree -- phylogenetic trees from alignments of nucleotide or protein sequences

[Thorsten Alteholz <debian@alteholz.de>]

Package: wnpp
Severity: wishlist
Owner: Thorsten Alteholz <debian@alteholz.de>

* Package name    : fasttree
  Version         : 2.1.4
  Upstream Author : Morgan N. Price <fasttree@microbesonline.org>
* URL             : http://www.microbesonline.org/fasttree/
* License         : GPL2+
  Programming Lang: C
  Description     : phylogenetic trees from alignments of nucleotide or 
protein sequences

 FastTree infers approximately-maximum-likelihood phylogenetic trees from
 alignments of nucleotide or protein sequences. It handles alignments
 with up to a million of sequences in a reasonable amount of time and
 memory. For large alignments, FastTree is 100-1,000 times faster than
 PhyML 3.0 or RAxML 7.

 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").