linux 建树软件,科学网—非常快速的建树软件FastTree - 彭友松的博文

FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of

nucleotide or protein sequences. FastTree can handle alignmentswith up to a million

of sequencesin a reasonable amount of time and memory. For large alignments, FastTree

is 100-1,000 times faster thanPhyML 3.0orRAxML 7. FastTree is open-source software -- you

can download the codebelow.

FastTree is more accurate than PhyML 3 with default settings,

andmuch more accurate than the distance-matrix methodsthat 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

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