pairwise-alignment
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Fast approximate string searching
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Dec 16, 2025 - Rust
GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment
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Apr 30, 2025 - C
A Python module to calculate alignment between two sequences using EMBOSS' needle, stretcher, and water
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Feb 27, 2025 - Python
convert alignment bam to pairwise alignment or multiple sequence alignment (msa) at genome specific region
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May 21, 2024 - Crystal
Fast pairwise sequence alignment using SeqAn, in Python.
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Mar 23, 2019 - C++
Pairwise genome comparison pipeline using the LAST software to align a list of query genomes to a target genome, and plot the results
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Nov 24, 2025 - Nextflow
Basic types and functions for pairwise alignment.
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Nov 4, 2025 - Rust
This project includes Needleman-Wunsch and Smith-Waterman algorithms and their afine gap variations (Gotoh) written to work with Cython, PyPy and Numba. Numba JIT shows greater performance. For Best performance use gotoh_jit.py to get only the best score and use gotoh_jit_traceback to get the best alignment
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Sep 22, 2021 - Python
Rust bindings for bsalign. A SIMD-based C library for fast partial order alignment and pairwise alignment.
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Sep 19, 2025 - Rust
This repository houses the Genomic Sequence Comparison Code (GSCC), a collection of Python scripts designed for genomic sequence analysis. Whether you're comparing suspected sequences with known reference sequences or delving into bioinformatics, GSCC provides versatile tools for pairwise alignment. Feel free to explore!
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Mar 19, 2024 - Python
An R script that calculates a similarity matrix for a list of protein sequences with the aid of Bleakley-Yamanishi Normalized Smith-Waterman Similarity Score.
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Dec 23, 2021 - R
Python implementation for DNA trace reconstruction with marker code, MIT licensed
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Jan 8, 2023 - Python
This repository contains a simple implementation of a pairwise alignment algorithm for FASTA files using the Needleman-Wunsch algorithm.
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Jun 20, 2024 - C++
Applications that compute pairwise alignments of two biological sequences
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Nov 27, 2025 - Java
Generate random sequence pairs to test pairwise aligners
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Mar 20, 2025 - Rust
R wrapper for running offline BLASTp alignments on curated protein sequence pairs. Originally built for personal use, now being developed into a reusable package for broader community use.
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Sep 9, 2025 - R
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