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GT-TALLYMER-OCCRAT(1) GenomeTools Manual GT-TALLYMER-OCCRAT(1)

NAME

gt-tallymer-occratio - Compute occurrence ratio for a set of sequences represented by an enhanced suffix array.

SYNOPSIS

gt tallymer occratio [options] -esa suffixerator-index [options]

DESCRIPTION

-esa [string]

specify suffixerator-index (mandatory option) (default: undefined)

-minmersize [value]

specify minimum mer size for which to compute the occurrence distribution (default: 0)

-maxmersize [value]

specify maximum mer size for which to compute the occurrence distribution (default: 0)

-step [value]

specify step size when specifying mer sizes (default: 1)

-mersizes

specify mer sizes as non-empty sequence of non decreasing positive integers

-output

use combination of the following keywords: unique nonunique nonuniquemulti relative total to specify kind of output

-scan [yes|no]

read suffixerator-index 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>.

04/27/2024 GenomeTools 1.6.5