Pontus Larsson

Login: b97pla

Company: National Genomics Infrastructure (NGI), hosted at Science For Life Laboratory

Location: Uppsala, Sweden

Bio: null

Blog: http://www.sequencing.se

Blog: http://www.sequencing.se

Member of

1. Science For Life Laboratory
2. Uppsala University, Department of Medical Sciences, Molecular Medicine

Repositories

arteria-delivery

Micro-service to carry out deliveries on Uppmax

arteria-incubation

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

arteria-packs

StackStorm packs to automate sequencing center operations

b97pla.github.io

null

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.

cloudbiolinux

CloudBioLinux: automating resource preparation for biological analysis

deploy_hercules

null

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

null

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

irods-docker

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

ngi-analysis-manager

null

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

role_hercules

Public Ansible role for deploying Hercules

samplesheet

A simple web service creating samplesheet CSV files for the Illumina HiSeq.

scilifelab

Misc code snippets for Science For Life Laboratory

scilifelab_bcbio

null

sisyphus

Pipeline scripts for processing and QC of Illumina HiSeq and MiSeq data

snpseq-archive-upload

Rest service for handling archive uploads

TACA

Tool for the Automation of Cleanup and Analyses

taca-ngi-pipeline

A TACA plugin adding functionality relevant for the ngi_pipeline

track_runfolders

Some tools for tracking the status of runfolders

vms

Config files etc.

Commits To