Nextflow for reproducible and automated data analysis
2 days
General context
You will learn how to use Nextflow for building scalable and reproducible bioinformatics pipelines and running them on a personal computer, cluster and cloud. Starting from the basic concepts we will build our own simple pipeline and add new features with every step, all in the new DSL2 language.
- Understand Nextflow's basic concepts: channels, processes, modules, workflows, etc.
- Write and run a Nextflow pipeline
- Write and modify config files for storing parameters related to computing hardware as well as pipeline dependent parameters
Bioinformaticians with no or little knowledge of containers or workflow pipelines.
You're familiar with doing bioinformatics on the command-line and with Docker.
If you have no experience with command line we strongly recommend to follow the Linux initiation training first.
If you have no experience with Docker you can follow the Docker training.
Trainers
Kobe Lavaerts
Bioinformatician at VIB Nucleomics Core in Leuven. Currently mainly focusing on operating and developing routine pipelines for processing raw sequencing data.
Kristofer Davie
Bioinformatician with over 8 years of experience in the analysis of a wide variety of next generation sequencing data types, with a strong focus on the analysis of single cell data (sc/snRNA-seq, scATAC-seq, Spatial technologies).
Practical info
17 November 2022 - 18 November 2022
Ghent - VIB/UGent FSVM I
Technologiepark 71
9052 Zwijnaarde
Belgium
17 November 2022 - 18 November 2022
Ghent - VIB/UGent FSVM I
From Ghent Sint-Pieters station, you can take bus 49, 50 or 70 to Technologiepark. Please check Routeplanner De Lijn for schedules.
17 November 2022 - 18 November 2022
Ghent - VIB/UGent FSVM I
There is only one entrance to Technologiepark. You need to take a ticket at the entrance that can be validated at the reception desk of the FSVM building. Parking will only be allowed in regular parking spots (for instance in front of the building) and in the new parking tower. Parking alongside the roads or in other places where there is no regular parking is prohibited and after initial warnings, fines will be issued (50 euros).
17 November 2022 - 18 November 2022
Ghent - VIB/UGent FSVM I
+32 9 331 36 00
Info for trainer
Elixir code: 7467