BSD Ports

wip/jellyfish 1.1.11 NetBSD

Fast, memory-efficient counting of k-mers in DNA

System
NetBSD
Repository
pkgsrc-wip
Maintainer
[email protected]
License
gnu-gpl-v3
Categories
wip, biology

Description

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.

Install

From pkgsrc-wip (no binary package):

cd /usr/pkgsrc/wip/jellyfish && make install clean

Dependencies

Run dependencies 1

No port depends on this one.