GenomeTools - manual page for GT-TALLYMER-SEARCH(1)

## NAME

gt-tallymer-search - Search a set of k-mers in an index constructed by “gt tallymer mkindex”.

## SYNOPSIS

gt tallymer search [options] -tyr tallymer-index -q queryfile0 [queryfile1..] [options]

## DESCRIPTION

-tyr [string]

  specify tallymer-index (default: undefined)

-q

  specify query file names

-strand [string]

  specify the strand to be searched: use f (for forward strand) or p (for reverse complemented strand) or fp (for both); default is f (default: f)

-output

  specify output flags (qseqnum, qpos, counts, sequence)

-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>.