A basic task in bioinformatics is the counting of k-mers in genome strings. The k-mer counting problem is to build a histogram of all substrings of length k in a given genome sequence. Gerbil is a k-mer counter that is specialized for high effiency when counting k-mers for large k. The software is decribed here.
module spider gerbil to find out what environment modules are available for this application.
- HPC_GERBIL_DIR - installation directory
- HPC_GERBIL_BIN - executable directory
If you publish research that uses gerbil you have to cite it as follows: