johandahlberg

awesome-10x-genomics

List of tools and resources related to the 10x Genomics GEMCode/Chromium system

polymerase

Data -> DNA -> Data

reedsolomon-scala

Reed-Solomon Encoding in Scala

arteria-incubation

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

arteria-bcl2fastq

Provides a simple http-interface for Illumina bcl2fastq

arteria-core

The arteria python module is a library of helper classes for the Arteria project.

arteria-delivery

Micro-service to carry out deliveries on Uppmax

arteria-packs

StackStorm packs to automate sequencing center operations

arteria-project.github.io

The Arteria project organization page: http://arteria-project.github.io

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).

aws-cdk

The AWS Cloud Development Kit is a framework for defining cloud infrastructure in code

checkQC

checkQC inspects the content of a runfolder and determines if it passes a set of quality criteria

claritylims

Customizations for our GenoLogics BaseSpace Clarity LIMS

django

The Web framework for perfectionists with deadlines.

django-rest-framework

Web APIs for Django. 🎸

filesystem_spec

A specification that python filesystems should adhere to.

graspologic-native

graspologic-native is a library of rust components to add additional capability to graspologic (https://github.com/microsoft/graspologic), a python library for intelligently building networks and network embeddings, and for analyzing connected data.

graspologic-native-feedstock

A conda-smithy repository for graspologic-native.

kodkurs

Kodkurs

localq

MegaQC

Web application to collect and visualise data across multiple MultiQC runs.

MultiQC

Aggregate results from bioinformatics analyses across many samples into a single report.

MultiQC_Clarity

MultiQC plugin interacting with the Illumina Genologics Clarity LIMS

networks-course

A short course on network data science at Johns Hopkins University

snpseq-archive-upload

Rest service for handling archive uploads

st2

StackStorm (aka "IFTTT for Ops") is event-driven automation commonly used for auto-remediation, security responses, facilitated troubleshooting, complex deployments, and more. Includes rules engine, workflow,1800+ integrations (see /st2contrib), native ChatOps and so forth. Installer available at http://docs.stackstorm.com/install/index.html. Ping us on slack - https://stackstorm-community.slack.com/.

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

summary-report-development

In this repository we will gather useful scripts that can be used in the process of developing new sequencing report at the SNP&SEQ Technology platform

uppsala-bioinformatics.se

My personal website

uppsalatechmap

Uppsala Tech Map