.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.49.3.
.TH FASTAQ-CAPILLARY_TO_PAIRS "1" "December 2023" "fastaq_capillary_to_pairs 3.17.0" "User Commands"
.SH NAME
fastaq_capillary_to_pairs \- Converts file of capillary reads to paired and unpaired files
.SH DESCRIPTION
usage: fastaq_capillary_to_pairs <infile> <outfiles prefix>
.PP
Given a file of capillary reads, makes an interleaved file of read pairs
(where more than read from same ligation, takes the longest read) and a file
of unpaired reads. Replaces the .p1k/.q1k part of read names to denote fwd/rev
reads with \fI\,/1\/\fP and \fI\,/2\/\fP
.SS "positional arguments:"
.TP
infile
Name of input fasta/q file
.TP
outfiles prefix
Prefix of output files
.SS "options:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit