Linux kernel source tree

Git Source Code Mirror - This is a publish-only repository but pull requests can be turned into patches to the mailing list via GitGitGadget (https://gitgitgadget.github.io/). Please follow Documen…

RNA-seq aligner

A versatile pairwise aligner for genomic and spliced nucleotide sequences

This is CS50's Library for C.

MMseqs2: ultra fast and sensitive search and clustering suite

Tools (written in C using htslib) for manipulating next-generation sequencing data

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

SRA Tools

bedtools - the swiss army knife for genome arithmetic

De novo assembler for single molecule sequencing reads using repeat graphs

This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

Near-optimal RNA-Seq quantification

PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner. This is a comprehensive upd…

TCR and BCR assembly from RNA-seq data

A software package for calculating, applying, evaluating and plotting the results of polygenic risk scores

Genotype and phase short tandem repeats using Illumina whole-genome sequencing data

R package for optimized LC-MS spectra processing

MinPath (Minimal set of Pathways) is a parsimony approach for biological pathway reconstructions using protein family predictions, achieving a more conservative, yet more faithful, estimation of th…