NAME¶

SYNOPSIS

tree_recon [OPTIONS] -m IN.DIST

DESCRIPTION

Reconstruct phylogenetic tree from Phylip matrix IN.DIST.

OPTIONS

-h, --help

Display the help message.

--version-check BOOL

Turn this option off to disable version update notifications of the application. One of 1, ON, TRUE, T, YES, 0, OFF, FALSE, F, and NO. Default: 1.

--version

Display version information.

Input / Output:

-m, --matrix INPUT_FILE

Name Phylip distance matrix file. Must contain at least three species. Valid filetype is: .dist.

-o, --out-file OUTPUT_FILE

Path to write output to. Valid filetypes are: .newick and .dot. Default: tree.dot.

Algorithm Options:

-b, --build STRING

Tree building method. nj: neighbour-joining, min: UPGMA single linkage, max: UPGMA complete linkage, avg: UPGMA average linkage, wavg: UPGMA weighted average linkage. Neighbour-joining creates an unrooted tree. We root that tree at the least joined pair. One of nj, min, max, avg, and wavg. Default: nj.

CONTACT AND REFERENCES

For questions or comments, contact:

Tobias Rausch <rausch@embl.de>

SeqAn Homepage:

http://www.seqan.de

VERSION

Last update: tree_recon version: 1.4.6 [tarball] SeqAn version: 2.3.1