Man page - pxstrec(1)

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Package: phyx
apt-get install phyx

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phyx

Manual

PXSTREC

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
CITATION
AUTHOR
REPORTING BUGS
COPYRIGHT

NAME

pxstrec - conduct state reconstruction analyses

SYNOPSIS

pxstrec [ OPTIONS ]... FILES

DESCRIPTION

This will conduct state reconstruction analyses.

OPTIONS

-d , --dataf = FILE

input data file

-w , --datawide

data is in wide format so (001 instead of 2)

-z , --dataz

data is in probability format (0,1,0,0)

-t , --treef = FILE

input tree file

-c , --conf = FILE

configuration file

	-n , --outstnum = FILE output file for stochastic mapping number
	-a , --outstnumany = FILE output file for stochastic mapping number any
	-m , --outsttim = FILE output file for stochastic mapping duration

-p , --periods = NUMS

comma separated times

-l , --logf = FILE

log file, STOUT otherwise

-o , --outanc = FILE

output file for ancestral calc

-s , --silent

less verbose output (default: false)

-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)

REPORTING BUGS

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