NAME

       pxrr - manual page for pxrr 1.3

SYNOPSIS

       pxrr [OPTIONS]...

DESCRIPTION

       Reroot  (or  unroot)  a  tree  file  and  produce  a  newick.  This will take a newick- or
       nexus-formatted tree from a file or STDIN.  Output is written in newick format.

OPTIONS

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

       -g, --outgroups=CSL
              outgroup sep by commas (NO SPACES!)

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

       -r, --ranked
              turn on ordering of outgroups. will root on first one present

       -u, --unroot
              unroot the tree

       -s, --silent
              do not error if outgroup(s) not found

       -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>

COPYRIGHT

       Copyright © 2014-2021 FePhyFoFum License GPLv3