Smith Waterman Python Packages

pyopal

Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.

stride-align

High-performance Python/C++ string and sequence alignment: Smith-Waterman, Needleman-Wunsch, Levenshtein, Damerau-Levenshtein, Jaro, and batch fuzzy matching.

minineedle

Needleman-Wunsch and Smith-Waterman algorithms in python

goombay

Python implementation of several sequence alignment algorithms such as Waterman-Smith-Beyer, Gotoh, and Needleman-Wunsch intended to calculate distance, show alignment, and display the underlying matrices.

pairwise-sequence-alignment

A Python module to calculate alignment between two sequences using EMBOSS' needle, stretcher, and water

gasal2-py

GASAL2-Py — Python bindings for GASAL2 (CUDA GPU sequence alignment). Search: GASAL2 python, GASAL2-Py.