pxtrt - trace big tree from taxon list and produce newick

Author

       Written by Stephen A. Smith (blackrim), Joseph W. Brown

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.

Copyright

       Copyright © 2017-2024 FePhyFoFum License GPLv3

pxtrt 1.3.1                                         June 2024                                           PXTRT(1)

Description

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

Name

       pxtrt - trace big tree from taxon list and produce newick

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

Reporting Bugs

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