A Groovy map containing sample information,
e.g. [ id: “test” ]
infile{:bash}
:file
MSA or distance matrix in Phylip format
*
initial_tree{:bash}
:file
Initial tree
Output
name:type
description
pattern
nwk{:bash}
meta{:bash}
:map
A Groovy map containing sample information
*.nwk{:bash}
:file
Final phylogeny in Newick format
*.nwk
stats{:bash}
meta{:bash}
:map
A Groovy map containing sample information
*_stat.txt{:bash}
:file
A text file with the statistics of the phylogeny
*_stat.txt
matrix{:bash}
meta{:bash}
:map
A Groovy map containing sample information
*.matrix.phy{:bash}
:file
Optional; the distance matrix in Phylip matrix format; it is generated if the -O option is passed in ext.args, although the provided file name will be overwritten
*.matrix.phy
bootstrap{:bash}
meta{:bash}
:map
A Groovy map containing sample information
*.bootstrap{:bash}
:file
A file containing all bootstrap trees in Newick format; it is generated if the -B option is passed in ext.args (and bootstrap is used), although the provided file name will be overwritten
*.bootstrap
versions{:bash}
versions.yml{:bash}
:file
File containing software versions
versions.yml
Tools
fastme
GPL v3
A comprehensive, accurate and fast distance-based phylogeny inference program.
