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arteria-delivery

Micro-service to carry out deliveries on Uppmax

arteria-incubation

Work-in-progress for the upcoming new and improved Arteria packs.

arteria-runfolder

A webservice used to monitor runfolders from Illumina instruments and check what state they are in (e.g. ready to process or not).

b97pla.github.io

bcbb

Useful bioinformatics code, primarily in Python and R

charon

Database for IGN projects and samples, with RESTful interface. Built on top of Tornado and CouchDB.

checkqc

CheckQC inspects the content of an Illumina runfolder and determines if it passes a set of quality criteria

cloudbiolinux

CloudBioLinux: automating resource preparation for biological analysis

configs

Config files used to define parameters specific to compute environments at different Institutions

deploy_hercules

docker-notebook

Docker containers for the IPython notebook (+SciPy Stack)

genologics

Python interface to the GenoLogics LIMS server via its REST API.

genologics-lims-python

Python interface to GenoLogics LIMS via its REST API.

gitflow-tests

testing git

hairy-adventure

Base for the automation challenge at SNP&SEQ - let's see which automation system suite our needs best!

hercules

hugin

Status monitor

ipython

Official repository for IPython itself. Other repos in the IPython organization contain things like the website, documentation builds, etc.

irma-provision

Ansible playbooks for provisioning NGI pipeline and related sw

irma-scripts

Stand-alone scripts deployed to Irma

irods-docker

Dockerfiles to build an irods iCAT server, stolen from https://github.com/irods/contrib

miarka-provision

Ansible playbooks for provisioning NGI cluster Miarka

ngi-analysis-manager

ngi_pipeline

Code driving the production pipeline at SciLifeLab

ngi_reports

Code to generate reports for use by the NGI in SciLifeLab

ngi_stats

Gather and plot statistics for NGI sequencing

piper

A genomics pipeline build on top of the GATK Queue framework. Main repository: https://github.com/NationalGenomicsInfrastructure/piper

py-trello

Python API wrapper around Trello's API

recruitment

role_hercules

Public Ansible role for deploying Hercules