'\" t
.\"     Title: gt-matchtool
.\"    Author: [FIXME: author] [see http://www.docbook.org/tdg5/en/html/author]
.\" Generator: DocBook XSL Stylesheets vsnapshot <http://docbook.sf.net/>
.\"      Date: 02/28/2024
.\"    Manual: GenomeTools Manual
.\"    Source: GenomeTools 1.6.5
.\"  Language: English
.\"
.TH "GT\-MATCHTOOL" "1" "02/28/2024" "GenomeTools 1\&.6\&.5" "GenomeTools Manual"
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.SH "NAME"
gt-matchtool \- Parse match formats and/or invoke matching tools\&.
.SH "SYNOPSIS"
.sp
\fBgt matchtool\fR [option \&...]
.SH "DESCRIPTION"
.PP
\fB\-type\fR [\fI\&...\fR]
.RS 4
choose match file format: OPENMATCH:
\fIopen match\fR
format, e\&.g\&. vmatch BLASTOUT : tabular BLAST output (\-m 8) BLASTALLP: invoke BLASTALL with blastp BLASTALLN: invoke BLASTALL with blastn BLASTP : invoke blastp BLASTN : invoke blastn LAST : invoke LAST SW : use Smith\-Waterman (default: OPENMATCH)
.RE
.PP
\fB\-matchfile\fR [\fIfilename\fR]
.RS 4
set input file name (default: undefined)
.RE
.PP
\fB\-db\fR [\fIfilename\fR]
.RS 4
set database file name (default: undefined)
.RE
.PP
\fB\-swminlen\fR [\fIvalue\fR]
.RS 4
set minimum required alignment length (for Smith\-Waterman alignment) (default: 10)
.RE
.PP
\fB\-swmaxedist\fR [\fIvalue\fR]
.RS 4
set maximum allowed edit distance (for Smith\-Waterman alignment) (default: 0)
.RE
.PP
\fB\-query\fR [\fIfilename\fR]
.RS 4
set query file name (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\&.