Description:

Nextflow is a workflow management tool designed to enable the creation of reproducible workflows that function across computational resources though the use of software containers. Many curated bioinformatics Nextflow pipelines can be found through the nf-core. In this workshop, we will explore their collection and work through running an nf-core pipeline on Quest. The biggest consideration for using Nextflow on Quest is setting the configuration to use Quest’s resources appropriately. We will cover how this is done through the nu-genomics profile for nf-core pipelines as well as writing a custom configuration file when necessary.

Prerequisites: There are no formal prerequisites for this workshop, but we recommend that attendees have an active account on Quest and are familiar with the basics of submitting jobs.

The Foundations in Genomics Analyses series will be taught in person on the Chicago campus and virtually during the fall 2024 quarter and will cover topics and skills foundational to conducting genomics-related research. This series is a collaboration between Northwestern IT's Research Computing and Data Services and the Galter Library and will be taught by Haley Carter and Pamela Shaw. Attendees are welcome to attend just one or as many workshops in the series they are interested in. However, there may be some references to previous weeks' material in any given workshop.