.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.6.
.TH PXCAT "1" "May 2018" "pxcat 0.99+ds" "User Commands"
.SH NAME
pxcat \- Sequence file concatenation.
.SH SYNOPSIS
.B pxcat
[\fI\,OPTION\/\fR]...
.SH DESCRIPTION
Sequence file concatenation.
Can use wildcards e.g.:
.IP
pxcat \fB\-s\fR *.phy \fB\-o\fR my_cat_file.fa
.SS "However, if the argument list is too long (shell limit), put filenames in a file:"
.IP
for x in *.phy; do echo $x >> flist.txt; done
.SS "and call using the -f option:"
.IP
pxcat \fB\-f\fR flist.txt \fB\-o\fR my_cat_file.fa
.PP
This will take fasta, fastq, phylip, and nexus inputs.
Individual files can be of different formats.
.TP
\fB\-s\fR, \fB\-\-seqf\fR=\fI\,FILE\/\fR
list of input sequence files (space delimited)
.TP
\fB\-f\fR, \fB\-\-flistFILE\fR
file listing input files (one per line)
.TP
\fB\-o\fR, \fB\-\-outf\fR=\fI\,FILE\/\fR
output sequence file, stout otherwise
.TP
\fB\-p\fR, \fB\-\-partf\fR=\fI\,FILE\/\fR
output partition file, none otherwise
.TP
\fB\-h\fR, \fB\-\-help\fR
display this help and exit
.TP
\fB\-V\fR, \fB\-\-version\fR
display version and exit
.SH "REPORTING BUGS"
Report bugs to: <https://github.com/FePhyFoFum/phyx/issues>
phyx home page: <https://github.com/FePhyFoFum/phyx>
.SH AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.