Man page - pxmrcaname(1)

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Package: phyx
apt-get install phyx

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phyx

Manual

PXMRCANAME

NAME
SYNOPSIS
DESCRIPTION
If no MRCA file is present, internal nodes will be labelled:
OPTIONS
CITATION
AUTHOR
REPORTING BUGS
COPYRIGHT

NAME

pxmrcaname - label internal nodes with clade names

SYNOPSIS

pxmrcaname [ OPTIONS ]...

DESCRIPTION

Label internal nodes with clade names. This will take a newick- or nexus-formatted tree from a file or STDIN, and an MRCA file with format:

MRCANAME = tip1 tip2 ...

If no MRCA file is present, internal nodes will be labelled:

px1, px2, ..., pxn

Output is written in newick format.

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>