Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.

Dockerfile for Nim lang

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

Google Drive client for the commandline

Implements a deep pretty printer for Go data structures to ease data snapshot creation

pythonic wrapper for libhts

My experimental tools on top of htslib. NOT OFFICIAL!!!

RUFUS k-mer based genomic variant detection

a simple C++ library for parsing and manipulating VCF files, + many command-line utilities

main repo of statsmodels

Convert tab-delimited file into a VCF

Basic operations on the space of numerical functions defined on the genome using lazy evaluators for flexibility and efficiency

An sklearn-like python package for pegasos models

This is a fork of timoxley - Tidbits of best practices information from around the web

BWK awk modified for biological data

A Variant Call Format reader for Python.

Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)

Windowed Adaptive Trimming for fastq files using quality

A factor analysis package

A Python interface to the BEDTools API using Cython

Primer is a Flash-like API built on top of Canvas using jQuery. (this fork aims to improve speed and make it easier to attach events to objects).