cariaso

sqlalchemy-s3sqlite

persist a sqlite database in s3, for use with aws lambda

LocalS3Repo

MediaWiki S3 and CloudFront Extension

MultiLoc2

subcellular protein localization prediction

bcbio-nextgen-vm

Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines

Computational_Medicine_1

Understanding how to index and use complex variants to more precisely categorize disease

cromwell

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

Cyrius

A tool to genotype CYP2D6 with WGS data

eutils

flask-security

Quick and simple security for Flask applications

Flask-User

Customizable User Authorization and Management for Flask: Register, Confirm email, Login, Change username, Change password, Forgot password and more.

flickr-download

Tool for downloading sets and photos from Flickr

HLA

xHLA: Fast and accurate HLA typing from short read sequence data

hvac

:lock: Python 2/3 client for HashiCorp Vault

mediawiki-extensions-GoogleTagManager

Github mirror of MediaWiki extension GoogleTagManager - our actual code is hosted with Gerrit (please see https://www.mediawiki.org/wiki/Developer_access for contributing

metapub

Python toolkit for NCBI metadata (via eutils) and pubmed article text mining -- official primary repo.

mwclient

mwclient is a Python framework to interface with the MediaWiki API.

octopus

Bayesian haplotype-based mutation calling

OligoRL

A Reinforcement Learning Framework for Pooled Oligonucleotide Design

open-cravat

A modular annotation tool for genomic variants

paper-qa

LLM Chain for answering questions from documents with citations

pta

tools used for somerset es pta work

pysam

Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.

python-sar

Python SAR parser module

python3-secureconfig

python3 fork of python-secureconfig

s3abird

Webmail client for emails stored on S3

StarCluster

StarCluster is an open source cluster-computing toolkit for Amazon's Elastic Compute Cloud (EC2).

txtorcon

Twisted-based asynchronous Tor control protocol implementation. Includes unit-tests, examples, state-tracking code and configuration abstraction.

wikitools

Python package for working with MediaWiki wikis

zcash-btcpay

zebraguide