Name: Alex Kanitz
Type: User
Company: Biozentrum, University of Basel & SIB Swiss Institute of Bioinformatics / ELIXIR Switzerland
Bio: Hi. I'm a software engineer and bioinformatician working on lab automation.
Location: Basel, Switzerland
Alex Kanitz's Projects
Testing how Flask and Connexion could be patched to allow type inferences for FOCA config.
Example workflows written in CWL
cwl-tes submits your tasks to a TES server. Task submission is parallelized when possible.
Temporary fork of unmerged, inaccessible pull request providing OAuth2 support; manually edited
Common Workflow Language reference implementation
FAIR Tools in RNA Bioinformatics
Scripts & cookiecutters to interact with Git repository hosting services
A website that showcases interesting projects!
Workflow to compare two sequence groups by multiple sequence alignment and distance tree
CWL WES-TES
Kitchen sink of bioinformatics scripts
Testing out config for using semantic releases
GA4GH Task Execution Service Root Project + Deployment scripts on Kubernetes
Testing Git flow with clean linear commit history based on a main, dev and feature branches
Example Travis CI configs
V-pipe is a pipeline designed for analysing NGS data of short viral genomes
Verify that the workflow attachment parameter of a GA4GH WES implementation is functional
The WES API is a standard way to run and manage portable workflows.