Description

Produces a Newick format phylogeny from a multiple sequence alignment. Capable of bacterial genome size alignments.

Input

name:type
description
pattern

alignment

:file

A FASTA format multiple sequence alignment file

*.{fasta,fas,fa,mfa}

Output

name:type
description
pattern

phylogeny

*.tre

:file

A phylogeny in Newick format

*.{tre}

versions_fasttree

${task.process}

:string

The name of the process

fasttree

:string

The name of the tool

fasttree -help 2>&1 | head -1 | sed 's/^FastTree \([0-9.]*\) .*$/\1/'

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions

${task.process}

:string

The name of the process

fasttree

:string

The name of the tool

fasttree -help 2>&1 | head -1 | sed 's/^FastTree \([0-9.]*\) .*$/\1/'

:eval

The expression to obtain the version of the tool

Tools

fasttree
GPL v2

FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences

http://www.microbesonline.org/fasttree http://www.microbesonline.org/fasttree/#Usage
maintainer
Github user aunderwo
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