NAME

       pxmrcacut - extract subclades from trees

SYNOPSIS

       pxmrcacut [OPTIONS]...

DESCRIPTION

       Extract subclade(s) from tree(s).  This will take a newick- or nexus-formatted tree from a file or STDIN,
       and an MRCA file with format: MRCANAME = tip1 tip2 ...  If multiple MRCAs are provided, multiple subtrees
       are returned

OPTIONS

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

       -m, --mrca=FILE
              file containing MRCA declarations

       -o, --outf=FILE
              output newick 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 © 2013-2024 FePhyFoFum License GPLv3

pxmrcacut 1.3.1                                     June 2024                                       PXMRCACUT(1)