Jellyfish

Search Software

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 using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism.

Website: http://www.cbcb.umd.edu/software/jellyfish/

SW Documentation: 

To run this software interactively in a Linux environment run the commands:

module load jellyfish
jellyfish
Short Name: 
jellyfish
SW Module: 
jellyfish
Service Level: 
Minimal
SW Category: