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