table of contents
| TREE_RECON(1) | TREE_RECON(1) |
NAME¶
tree_recon - Tree reconstruction
SYNOPSIS¶
tree_recon [OPTIONS] -m IN.DIST
DESCRIPTION¶
Reconstruct phylogenetic tree from Phylip matrix IN.DIST.
OPTIONS¶
- -h, --help
- Display the help message.
- --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
| tree_recon 1.4.8 [tarball] |