Jellyfish

Citing the authors' home page: Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers quickly by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism.

Load procedure: module load jellyfish

The software and instructions can be found on: ​http://www.genome.umd.edu/jellyfish.html

Mykopat Grid specifics

None.

Installed versions

• 2.3.0