Ben Weisburd

ConfigArgParse. Drop-in replacement for argparse with added support for config files and environment variables.

ExpansionHunter. This fork of Illumina/ExpansionHunter introduces new features and optimizations

Pangolin. Pangolin is a deep-learning method for predicting splice site strengths.

wdl_pipelines. WDL pipelines to be run on cromwell (https://github.com/broadinstitute/cromwell)

pypez. simple pipelines in python

hail-utils. misc. hail utils

step-pipeline. This library provides a thin wrapper API around Hail Batch that adds features like skipping steps whose output files have already been generated, additional options for localizing files, notifications about pipeline completion, etc.

rnaseq-viewer. JavaScript

annotation-utils. misc. python utilities

hail-scripts. hail scripts from misc. analyses