Man page - pxrmt(1)

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Package: phyx
apt-get install phyx

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phyx

Manual

PXRMT

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
CITATION
AUTHOR
REPORTING BUGS
COPYRIGHT

NAME

pxrmt - remove tree tips by label

SYNOPSIS

pxrmt [ OPTIONS ]...

DESCRIPTION

Remove tree tips by label. 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

-n , --names = CSL

names sep by commas (NO SPACES!)

-f , --namesf = FILE

names in a file (each on a line)

-r , --regex = STRING

match tip labels by a regular expression

-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 Joseph W. Brown, Stephen A. Smith (blackrim)

REPORTING BUGS

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