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other versions
- bookworm 1.6.2+ds-3
- bookworm-backports 1.6.5+ds-2~bpo12+1
- testing 1.6.5+ds-2.2
- unstable 1.6.5+ds-2.2
| GT-MATCHTOOL(1) | GenomeTools Manual | GT-MATCHTOOL(1) |
NAME¶
gt-matchtool - Parse match formats and/or invoke matching tools.
SYNOPSIS¶
gt matchtool [option ...]
DESCRIPTION¶
-type [...]
choose match file format: OPENMATCH: open match
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)
-matchfile [filename]
set input file name (default: undefined)
-db [filename]
set database file name (default: undefined)
-swminlen [value]
set minimum required alignment length (for Smith-Waterman
alignment) (default: 10)
-swmaxedist [value]
set maximum allowed edit distance (for Smith-Waterman
alignment) (default: 0)
-query [filename]
set query file name (default: undefined)
-help
display help and exit
-version
display version information and exit
REPORTING BUGS¶
Report bugs to https://github.com/genometools/genometools/issues.
| 11/28/2022 | GenomeTools 1.6.2 |