An Open Source Machine Learning Framework for Everyone

Google's Operations Research tools:

a small build system with a focus on speed

Vowpal Wabbit is a machine learning system which pushes the frontier of machine learning with techniques such as online, hashing, allreduce, reductions, learning2search, active, and interactive lea…

The Fast Cross-Platform Package Manager

Public development project of the LAMMPS MD software package

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

sophisticated command line file transfer program (ftp, http, sftp, fish, torrent)

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

The next version of bwa-mem

A fast and sensitive gapped read aligner

Oxford Nanopore's Basecaller

Graph-based alignment (Hierarchical Graph FM index)

C++ API & command-line toolkit for working with BAM data

The Levenshtein Python C extension module contains functions for fast computation of Levenshtein distance and string similarity

An ultrafast memory-efficient short read aligner

Collective variables library for molecular simulation and analysis programs

TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files

Long read aligner

Segmented HAPlotype Estimation and Imputation Tool

Segmented HAPlotype Estimation and Imputation Tool

Haplotype phasing software

A complete tool set for molecular QTL discovery and analysis

sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read.

Axel Kohlmeyer's development repository of the LAMMPS MD software package