Docker (and Singularity) for reproducible and automated data analysis - online
2 days
General context
The course will give an introduction to containers (Docker & Singularity) which are great components to achieve portability and reproducibility of your analysis. You will learn how to use containers and how to build a container from scratch, share it with others and how to re-use and modify existing containers. After an extensive explanation on Docker containers, Singularity will be highlighted as well.
- Learn the concept of and the difference between Docker & Singularity containers
- Write a Docker recipe, build and run a Docker image and containers
- Pull and push Docker container to / from Docker hub
- Docker files and layers; Docker cashing
- Working with volumes
- Pull Docker containers as a Singularity image
Bioinformaticians with no or little knowledge of containers.
You're familiar with doing bioinformatics on the command-line.
If you have no experience with command line you can follow the Linux initiation training first.
Trainers
Alexander Botzki
Alexander Botzki is heading the Technology training unit at VIB, the Flemish Institute of Biotechnology, Belgium. The main mission of this unit is providing technology training in domains of VIB Technologies, Bioinformatics & AI, Software Development, and Research Data Management. Between 2014 and 2022, he was head of the VIB Bioinformatics Core. From September 2009 to July 2014, he was responsible for the roll-out of E-Notebook (electronic lab notebook) to VIB's researchers within 75 research groups.
Before joining VIB, Alexander worked on various computational biology projects for Algonomics (bought by Lonza, 2008-2009) and DevGen (now Syngenta, from 2006-2008). During Alexander's PostDoc at Sanofi Aventis in Strasbourg, he executed various virtual screening campaigns on the compound selection of the merged enterprise. He received his doctoral degree with the group of Prof. Dr. Armin Buschauer (University of Regensburg, Germany) on 'Structure-based design of hyaluronidase inhibitors'.
Program
Practical info
Info for trainer
Elixir code: (to be registered)