Man page - pxlssq(1)

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Package: phyx
apt-get install phyx

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phyx

Manual

PXLSSQ

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
CITATION
AUTHOR
REPORTING BUGS
COPYRIGHT

NAME

pxlssq - print sequence file summary

SYNOPSIS

pxlssq [ OPTIONS ]...

DESCRIPTION

Print sequence file summary. By default returns all properties. Alternatively choose 1 property. This will take fasta, phylip, and nexus formats from a file or STDIN.

OPTIONS

-s , --seqf = FILE

input seq file, STDIN otherwise

-i , --indiv

output stats for individual sequences

-n , --nseq

return the number of sequences

-c , --nchar

return the number of characters (only if aligned) - for unaligned seqs, use with -i flag

-l , --labels

return all taxon labels (one per line)

-p , --prot

force interpret as protein (if inference fails)

-a , --aligned

return whether sequences are aligned (same length)

-f , --freqs

return character state frequencies

-m , --missing

return the proportion of missing (-,?) characters

-o , --outf = FILE

output stats 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 F. Walker, Joseph W. Brown

REPORTING BUGS

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