SSW

SSW is a fast implementation of the Smith-Waterman algorithm, which uses the Single-Instruction Multiple-Data (SIMD) instructions to parallelize the algorithm at the instruction level. SSW library provides an API that can be flexibly used by programs written in C, C++ and other languages. We also provide a software that can do protein and genome alignment directly. Current version of our implementation is ~50 times faster than an ordinary Smith-Waterman. It can return the Smith-Waterman score, alignment location and traceback path (cigar) of the optimal alignment accurately; and return the sub-optimal alignment score and location heuristically.

homepage: https://github.com/mengyao/Complete-Striped-Smith-Waterman-Library

version	toolchain
1.1	GCCcore/10.2.0
1.1	GCCcore/10.3.0
1.1	GCCcore/11.2.0
1.1	GCCcore/12.3.0
1.1	GCCcore/9.3.0
1.2.4	GCCcore/10.3.0

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