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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>.
07/29/2016 GenomeTools 1.5.9