A minimal copy fastq and fasta reader built for parallel support and paired end processing

Short-read assembler for bacterial genomics based on a de Bruijn graph written in Rust 🦅

A new high-resolution long-read metagenome assembler for even noisy reads

A high efficiency binary format for sequencing data

Fast DNA search and [host] depletion using minimizers

MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.

Fast sequence distance estimates

FASTQ sequence quality visualisation with Emoji

E. coli K-antigen group 2 and group 3 typing database

a cute metasearch engine

Parallel Implementation of HMM on Multicore Platform

A Rust library providing fully dynamic sets of k-mers with high locality

Split k-mer analysis – version 2

Fast pairwise transmission inference from single genome and/or metagenomic data

Compile binaries for macOS on Linux

zlib replacement with optimizations for "next generation" systems.

Heavily optimized library for DEFLATE/zlib/gzip compression and decompression

Gzip Decompression and Random Access for Modern Multi-Core Machines

A Fast and Easy to use microframework for the web.

BS::thread_pool: a fast, lightweight, modern, and easy-to-use C++17 / C++20 / C++23 thread pool library

Self-contained, multi-threaded fasta/q parser

⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.

A modern, C++-native, test framework for unit-tests, TDD and BDD - using C++14, C++17 and later (C++11 support is in v2.x branch, and C++03 on the Catch1.x branch)

Phylogenetic inference using Stan

Assembled Genomes Compressor

Epidemiological modeling framework for pathogen population genetics and evolution.

Efficient phylogenetic tree inference for massive taxonomic datasets

Genomewide Epistasis Analysis on Bacteria