Scroll to navigation

PXCAT(1) User Commands PXCAT(1)

NAME

pxcat - Sequence file concatenation.

SYNOPSIS

pxcat [OPTION]...

DESCRIPTION

Sequence file concatenation. Can use wildcards e.g.:
pxcat -s *.phy -o my_cat_file.fa

However, if the argument list is too long (shell limit), put filenames in a file:

for x in *.phy; do echo $x >> flist.txt; done

and call using the -f option:

pxcat -f flist.txt -o my_cat_file.fa

This will take fasta, fastq, phylip, and nexus inputs. Individual files can be of different formats.

-s, --seqf=FILE
list of input sequence files (space delimited)
-f, --flistFILE
file listing input files (one per line)
-o, --outf=FILE
output sequence file, stout otherwise
-p, --partf=FILE
output partition file, none otherwise
-h, --help
display this help and exit
-V, --version
display version and exit

REPORTING BUGS

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

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.
May 2018 pxcat 0.99+ds