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bam_nsq_hash

Hash name seq and quality, to test losslessness of tools and formats. Simple.

bamutil

bbcat-audioobjects

Audio objects library for the BBC Audio Toolbox

biobambam2

Tools for early stage alignment file processing

bitsandbobs

Notes and examples of this and that

bookz

bwa

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

cadd-scripts

CADD scripts release for offline scoring. For more information about CADD, please visit our website

cc-rs

Rust library for build scripts to compile C/C++ code into a Rust library

checkmate

library for game playing opponents, min max etc.

cluster

Physics engine in Go, following the Game Physics Engine Development book.

containers

Containers "distribution" for reproducible neuroimaging

cromshell

shell script for interacting with cromwell servers

cromwell

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

dolbydota

attempt to make an interface between dota 2 and dolby axon with an end goal of being able to automatically position in dolby based on the position in dota

ega-download-client

A basic Python-based EGA download client

embedpytest

test and example code for embedding a python repl in c, and interacting with c objects

eta

nice simple script for estimating complete time of something

evanbenn

website

experiments

fish-shell

The user-friendly command line shell.

gatk

Official code repository for GATK versions 4 and up

gatk4-data-processing

Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools

gatk4-germline-snps-indels

Workflows for germline short variant discovery with GATK4

gentoo

[MIRROR] Official Gentoo ebuild repository

hap.py

Haplotype VCF comparison tools

human_calculator

image_sort

simple image sorter. Display 4 images, asd moves images into 'delete' 'bad' and 'good' categories. Written because my laptop is too slow for other image programs. Wanted to add threaded/background file buffering.

io_lib

Staden Package "io_lib" (sometimes referred to as libstaden-read by distributions). This contains code for reading and writing a variety of Bioinformatics / DNA Sequence formats.

joint_call_shards

shard a genome into N regions with no boundaries inside genes