EMBL Australia Bioinformatics Resource: Implementing Scalable Bioinformatic Workflows in Snakemake & Nextflow

Date: 25 & 26 September 2019
Time: 11.30am – 3.30pm
Venue: University of Adelaide, North Tce Campus, Room 4.50 Braggs Building

About this Event

Recent years have seen a groundswell of support in the bioscience community for improved reproducibility of data analyses. Large analysis workflows are fragile ecosystems of software tools, scripts and dependencies. One solution to these issues is the use of the workflow management systems such as Nextflow and Snakemake.

Learning Outcomes

By completing this workshop, participants will be able to:

  • Execute existing Nextflow and Snakemake workflows
  • Understand the basic concept required for building a workflow from scratch
  • Implement a simple extension to an existing workflow
  • Learn how to scale workflows onto High Performance Computing (HPC) infrastructure
  • Understand the different paradigms underpinning Snakemake and Nextflow so a choice can be made about which to move forward with

Intended Audience

This workshop is intended for researchers who use bioinformatics workflows in their research, but who do not yet have knowledge of Nextflow or Snakemake. Prerequisites:

  • Experience with at least 1 scripting language
  • Experience with the Linux command line

What to Bring

  • Internet-enabled laptop
  • Windows users will need to install PuTTY or Git Bash before attending
  • The schedule will only include a short break, so please bring lunch

Register for this Event

Register online via Eventbrite.

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