NAME

pxtrt - trace big tree from taxon list and produce newick

SYNOPSIS

pxtrt [OPTIONS]...

DESCRIPTION

This will trace a big tree given a taxon list and produce newick. Data can be read from a file or STDIN.

OPTIONS

-t, --treef=FILE: input tree file, STDIN otherwise
-n, --names=CSL: names sep by commas (NO SPACES!)
-f, --namesf=FILE: names in a file (each on a line)
-c, --comp: take the complement (i.e. remove any taxa not in list)
-s, --silent: suppress warnings of missing tips
-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 Stephen A. Smith (blackrim), Joseph W. Brown

REPORTING BUGS

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