Man page - pxbp(1)
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Package: phyx
apt-get install phyx
apt-get install phyx
Manuals in package:
Documentations in package:
Manual
| PXBP(1) | User Commands | PXBP(1) |
NAME
pxbp - print out bipartitions found in treefiles
SYNOPSIS
pxbp [OPTIONS]...
DESCRIPTION
This will print out bipartitions found in treefile. Trees are assumed rooted unless the -e argument is provided. This will take a newick- or nexus-formatted tree from a file or STDIN.
OPTIONS
- -t, --treef=FILE
- input treefile, STDIN otherwise
- -v, --verbose
- give more output
- -e, --edgeall
- force edgewise (not node - so when things are unrooted) and assume all taxa are present in all trees
- -u, --uniquetree
- output unique trees and *no* other output
- -m, --maptree=FILE
- put the bipart freq on the edges of this tree. This will create a *.pxbpmapped.tre file.
- -c, --cutoff
- skip biparts that have support lower than this.
- -s, --suppress
- don't print all the output (maybe you use this with the maptree feature
- -o, --outf=FILE
- output file, STOUT otherwise
- -h, --help
- display this help and exit
- -V, --version
- display version and exit
- -C, --citation
- display phyx citation and exit
CITATION
Brown, Joseph W., Joseph F. Walker, and Stephen A. Smith. 2017. Phyx: phylogenetic tools for unix. Bioinformatics 33(12): 1886-1888. https://doi.org/10.1093/bioinformatics/btx063.
AUTHOR
Written by Stephen A. Smith (blackrim)
REPORTING BUGS
Report bugs to: <https://github.com/FePhyFoFum/phyx/issues> phyx home page: <https://github.com/FePhyFoFum/phyx>
COPYRIGHT
Copyright © 2017-2024 FePhyFoFum License GPLv3
| June 2024 | pxbp 1.3.1 |