Smith-Waterman database searches with inter-sequence SIMD parallelisation

SWIPE is a tool for performing rapid local alignment searches in amino acid or nucleotide sequence databases. It is a highly optimized implementation of the Smith-Waterman algoritm using SIMD parallel computing technology available on common CPUs.

The method and a performance evaluation is described in detail the following publication:

Rognes T (2011)
Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation.
BMC Bioinformatics 12, 221. doi:10.1186/1471-2105-12-221

Please see the README and CHANGES file for a little bit of documentation.

More information about SWIPE can be found on its website.

SWIPE may be installed with Homebrew using the following command:

brew install brewsci/bio/swipe