htop is an interactive text-mode process viewer for Unix systems. It aims to be a better 'top'.

Official code repository for GATK versions 4 and up

A DSL for data-driven computational pipelines

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

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

Tag cloud/Wordle presentation on 2D canvas or HTML

MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:

Sampling profiler for Python programs

RAxML Next Generation: faster, easier-to-use and more flexible

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

Lynis - Security auditing tool for Linux, macOS, and UNIX-based systems. Assists with compliance testing (HIPAA/ISO27001/PCI DSS) and system hardening. Agentless, and installation optional.

The httperf HTTP load generator

cowplot: Streamlined Plot Theme and Plot Annotations for ggplot2

de novo sequence assembler using string graphs

Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.

Tools for bioinformatics moved to http://git.genenetwork.org/pjotrp/bioinformatics

Vagga is a containerization tool without daemons

Modular and universal bioinformatics

Provides access to complex Bioinformatics software (even BioLinux!) in just one command.

Production-Grade Container Scheduling and Management

Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊

BioFabric is an open-source network visualization tool

A starting point for building graphs with Cytoscape.js during the MozFest 2015 open science session

The open source frontend for GitBook doc sites

Automatically exported from code.google.com/p/gio-repository

GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.html Note: This was the original repository which…

a toolkit for working with Oxford nanopore data

Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.