Official git repository for Biopython (originally converted from CVS)

• UpdatedJul 11, 2025
• Python

A versatile pairwise aligner for genomic and spliced nucleotide sequences

• UpdatedJun 15, 2025
• C

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

• UpdatedMar 22, 2025
• C

Accelerated BLAST compatible local sequence aligner.

• UpdatedJun 25, 2025
• C++

The next version of bwa-mem

• UpdatedJun 30, 2025
• C++

Versatile open-source tool for microbiome analysis

• UpdatedJul 9, 2025
• C++

📖🔬☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.

• UpdatedMar 20, 2025
• Java

Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.

• UpdatedMay 13, 2025
• C++

Sequence-to-graph mapper and graph generator

• UpdatedMay 22, 2024
• C

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

• UpdatedJun 21, 2025
• C++

Align proteins to genomes with splicing and frameshift

• UpdatedJul 11, 2025
• C

Bidirectionally transformed strings

• UpdatedJan 11, 2024
• Python

Intuitive graphical web interface for running BLAST bioinformatics tool (i.e. have your own custom NCBI BLAST site!)

• UpdatedJul 4, 2025
• JavaScript

LexicMap: efficient sequence alignment against millions of prokaryotic genomes

• UpdatedJul 3, 2025
• Go

A fast multiple sequence alignment program.

• UpdatedJul 8, 2025
• C

MSA(Multiple Sequence Alignment) visualization python package for sequence analysis

• UpdatedDec 1, 2024
• Python

Global alignment and alignment extension

• UpdatedJun 27, 2023
• C

Comparative Genomics Toolkit 3

• UpdatedJul 11, 2025
• Python

Neural Networks for Protein Sequence Alignment

• UpdatedNov 11, 2024
• Python

Rust bindings to minimap2 library

• UpdatedJun 27, 2025
• Jupyter Notebook