structural variant database software

A collection of inspiring lists, manuals, cheatsheets, blogs, hacks, one-liners, cli/web tools and more.

Microsatellite Instability (MSI) detection using high-throughput sequencing data.

The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants

Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer

Call and score variants from WGS/WES of rare disease patients.

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

A GPU-accelerated toolkit and visualization grammar for genomic (and other) data

cython + htslib == fast VCF and BCF processing

The MongoDB Database

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

tmux source code

🙃 A delightful community-driven (with 2,000+ contributors) framework for managing your zsh configuration. Includes 300+ optional plugins (rails, git, macOS, hub, docker, homebrew, node, php, python…

⛅ The right way to check the weather

VCF visualization interface

A collection of modern/faster/saner alternatives to common unix commands.

Vundle, the plug-in manager for Vim

Tmux Plugin Manager

Python 3 library with good support for both reading and writing VCF

Powerline is a statusline plugin for vim, and provides statuslines and prompts for several other applications, including zsh, bash, tmux, IPython, Awesome and Qtile.

a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads

Automatic tiling window manager for macOS à la xmonad.

A code-completion engine for Vim

A collection of my personal dotfiles

Fish-like autosuggestions for zsh

Battenberg R package for subclonal copynumber estimation

A Variant Call Format reader for Python.

Fish shell like syntax highlighting for Zsh.

🐠 ZSH port of Fish history search (up arrow)