pxmono(1)

NAME

pxmono - monophyly checker

SYNOPSIS

pxmono [OPTIONS]...

DESCRIPTION

Monophyly checker. This will take a newick- or nexus-formatted tree from a file or STDIN.

OPTIONS

-t, --treef=FILE: input tree file, STDIN otherwise

-n, --names=CSL: names separated by commas (NO SPACES!)

-f, --namesf=FILE: names in a file (each on a line)

-c, --comp: take the complement (i.e. check monophyly of taxa not in list)

-i, --ignore: ignore missing (default: exit if names are not in the tree)

-o, --outf=FILE: output tree 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 Joseph W. Brown

REPORTING BUGS

Report bugs to: <https://github.com/FePhyFoFum/phyx/issues> phyx home page: <https://github.com/FePhyFoFum/phyx>