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.\"     Title: gt-compreads-refdecompress
.\"    Author: [FIXME: author] [see http://www.docbook.org/tdg5/en/html/author]
.\" Generator: DocBook XSL Stylesheets vsnapshot <http://docbook.sf.net/>
.\"      Date: 07/22/2020
.\"    Manual: GenomeTools Manual
.\"    Source: GenomeTools 1.6.1
.\"  Language: English
.\"
.TH "GT\-COMPREADS\-REFDE" "1" "07/22/2020" "GenomeTools 1\&.6\&.1" "GenomeTools Manual"
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.SH "NAME"
gt-compreads-refdecompress \- Decodes a given RCR (Reference Compressed Reads)\&.
.SH "SYNOPSIS"
.sp
\fBgt compreads refdecompress\fR [option \&...] (\-file file)
.SH "DESCRIPTION"
.PP
\fB\-v\fR [\fIyes|no\fR]
.RS 4
be verbose (default: no)
.RE
.PP
\fB\-qnames\fR [\fIyes|no\fR]
.RS 4
decode read names, default is to just number them (default: no)
.RE
.PP
\fB\-ref\fR [\fIstring\fR]
.RS 4
Index file (generated by the gt encseq tool) for reference genome\&. (default: undefined)
.RE
.PP
\fB\-rcr\fR [\fIstring\fR]
.RS 4
specify base name of file containing RCR\&. (default: undefined)
.RE
.PP
\fB\-name\fR [\fIstring\fR]
.RS 4
specify base name for decoded RCR (suffix will be "\&.rcr\&.decoded") (default: undefined)
.RE
.PP
\fB\-help\fR
.RS 4
display help and exit
.RE
.PP
\fB\-version\fR
.RS 4
display version information and exit
.RE
.SH "REPORTING BUGS"
.sp
Report bugs to https://github\&.com/genometools/genometools/issues\&.