Man page - gt-tallymer-mkindex(1)
Packages contains this manual
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- gt-cds(1)
- gt-extractfeat(1)
- gt-dupfeat(1)
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- gt-congruence-spacedseed(1)
- gt-id_to_md5(1)
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apt-get install genometools
Manual
GT-TALLYMER-MKINDE
NAMESYNOPSIS
DESCRIPTION
REPORTING BUGS
NAME
gt-tallymer-mkindex - Count and index k-mers in the given enhanced suffix array for a fixed value of k.
SYNOPSIS
gt tallymer mkindex [options] -esa suffixerator-index [options]
DESCRIPTION
-esa [ string ]
specify suffixerator-index (mandatory option) (default: undefined)
-mersize [ value ]
Specify the mer size. (default: 20)
-minocc [ value ]
Specify the minimum occurrence number for the mers to output/index (default: 0)
-maxocc [ value ]
Specify the maximum occurrence number for the mers to output/index (default: 0)
-pl [ value ]
specify prefix length for bucket boundary construction recommendation: use without argument; then a reasonable prefix length is automatically determined (default: 0)
-indexname [ string ]
store the mers specified by options -maxocc and -minocc in an index (default: undefined)
-counts [ yes|no ]
store counts of the mers (default: no)
-scan [ yes|no ]
read enhanced suffix array sequentially instead of mapping it to memory (default: no)
-v [ yes|no ]
be verbose (default: no)
-help
display help and exit
-version
display version information and exit
REPORTING BUGS
Report bugs to <kurtz@zbh.uni-hamburg.de>.