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# pyssw: python wrapper for Smith-Waterman Python Module
The C code for SWW alignment is derived from: [original source repository](https://github.com/mengyao/Complete-Striped-Smith-Waterman-Library)
Please cite this [PLOS ONE paper](http://dx.plos.org/10.1371/journal.pone.0082138) by Zhao et al. 2013
## Overview
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. 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.
Note: When SSW open a gap, the gap open penalty alone is applied.
## Installation
from [PyPi](https://pypi.org/project/pyssw/)
pip install pyssw
or from source
git clone https://github.com/Runsheng/pyssw.git cd pyssw pip install .
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Release files for pyssw 0.1.7
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Built distributions (wheels)
| File | Reset | |||
|---|---|---|---|---|
| pyssw-0.1.7-cp312-cp312-manylinux1_x86_64.whl | CPython 3.12 | CPython 3.12 | Linux glibc 2.5+ x86-64 | Details |
| pyssw-0.1.7-cp311-cp311-manylinux1_x86_64.whl | CPython 3.11 | CPython 3.11 | Linux glibc 2.5+ x86-64 | Details |
| pyssw-0.1.7-cp310-cp310-manylinux1_x86_64.whl | CPython 3.10 | CPython 3.10 | Linux glibc 2.5+ x86-64 | Details |
| pyssw-0.1.7-cp39-cp39-manylinux1_x86_64.whl | CPython 3.9 | CPython 3.9 | Linux glibc 2.5+ x86-64 | Details |
| pyssw-0.1.7-cp38-cp38-manylinux1_x86_64.whl | CPython 3.8 | CPython 3.8 | Linux glibc 2.5+ x86-64 | Details |
Total release size: 71.8 kB
Release files / pyssw-0.1.7-cp312-cp312-manylinux1_x86_64.whl
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| Size | 14.3 kB |
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| Tags | CPython 3.9 Linux glibc 2.5+ x86-64 |
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