Introduction

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.

For more information, visit the Jellyfish official website.

Programming language: C++

Brief description: a tool for fast, memory-efficient counting of k-mers in DNA.

Open source license: GPL 3.0