---
name: "gt-tallymer-search"
section: "1"
platform: "linux"
package: "genometools"
version: "1.6.5+ds-2.2"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/gt-tallymer-search"
---

# gt-tallymer-search(1)

Search a set of k-mers in an index constructed by \`\`gt tallymer mkindex''.

## 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\>.