Streamline your research through the development of reproducible analysis pipelines
In a nutshell
- Learn the fundamental best-practices of bioinformatic pipeline development
- Understand how workflow management systems can accelerate your research
- Use state-of-the-art, open source software to make complex analyses routine
- Perform your own custom analysis pipelines using Nextflow!
October 4-7, 2022
9 am – 5 pm
The purpose of the workshop is to introduce the concepts of bioinformatic pipeline development through the context of the open source Workflow Management System (WMS) Nextflow. The participants will be trained in the scripting, configuration and execution of example analysis pipelines based on current industry best-practices, and learn how to share them with other users. Finally, the participants will apply everything they have learned by implementing their own analysis pipelines from the ground up.
By the end of the workshop all attendees will be enabled to build their own scalable, reproducible bioinformatic pipelines which can be run locally, on high-performance computing clusters or even in the cloud. The course layout has been adapted to the needs of beginners in the field of computational biology and allows scientists with little or no background in software development to get a first hands-on experience in this new and fast-evolving area of expertise.
Get trained by experts
Our trainers have a proven record of academic and/or industrial experience in NGS data analysis. Because up-to-date expert knowledge is needed to answer your questions and know what is important in the field.
Open source NGS tools
We only use open source tools that are free to use for academia and industry.
Learn effectively with well-curated materials
For an optimal learning experience we carefully prepare our learning materials and example data.
This workshop has been adapted to the needs of beginners in the field of (biological) data analysis and comprises these three course modules:
- Introduction to pipeline development and workflow management systems:
An overview of bioinformatic pipeline development in the context of workflow management systems such as Nextflow and Snakemake. Important consideration is given to understanding and addressing the needs of other pipeline users in regards to various types of computational infrastructure.
- Nextflow for biological data analysis:
Get hands-on with Nextflow. Understand processes and channels, the scripting language and syntax, execution abstraction and relevant configuration options. This module covers essential knowledge for the practical implementation of any new project in bioinformatic pipeline development.
- Build your own analysis pipeline:
This module will be entirely hands-on, beginning with the planning and outlining of a custom bioinformatics pipeline and ending with the opportunity to start building and implementing the pipeline from the ground up, with guidance from our in-house experts. Participants can choose from a selection of relevant examples from the field of NGS data analysis.