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 <[email protected]>
- SeqAn Homepage:
-
http://www.seqan.de