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Nextflow workshop and hackathon at Pawsey

11 November - 14 November 2019
9:00am - 5:00pm
Event cost: $200

Event Cost : $200 (Early bird: $100, until 18 October)

 

Do you work with a large analysis pipeline, comprised of software tools, scripts and dependencies?

Would your analysis protocol benefit from being more portable, reproducible and scalable?

 

Large analyses pipelines are fragile ecosystems made up of software tools, scripts and dependencies. In recent years biosciences, radioastronomy and other data intensive domains have seen an increased need for portability, reproducibility and scalability of analysis protocols.

Addressing this need are scientific workflow systems such as Nextflow. With over 15,000 downloads per month, it has become one of the most popular platforms for running high-throughput life-science workloads on local workstations, cloud and HPC clusters.

This 4-day workshop and hackathon teaches you how to use NextFlow and then supports you as you apply that learning to your own workflow.

Run by Nextflow main developers, Paolo Di Tommaso and Evan Floden, the workshop introduces NextFlow concepts and syntax through examples and hands-on exercises. During the hackathon, you apply Nextflow to a pipeline of your choice. You’ll leave the training with an improved workflow, ready to increase your research output.

Participants

This training event is for PhD students, post-docs, researchers, and support specialists using or developing computational pipelines.

Despite being designed in the context of bioinformatics, NextFlow is not domain specific. NextFlow can be applied to other scientific fields using computational pipelines, including but not restricted to data science and radioastronomy.

Workshop & Hackathon

The event runs over four days in Perth. It covers the Nextflow technology starting from basic through to advanced concepts, including building proficiency with Nextflow workflows and reproducibility concepts.

Workshop (Days 1&2):

Training is provided across general workflow, container and Nextflow-specific topics. Each topic includes talks, demonstrations and practical sections, during which all participants can follow along using the materials and computing environment. Topics include:

  • Nextflow language syntax
  • Deployment scenarios, including containers and schedulers
  • Pipeline sharing, reproducibility, provenance
  • Advanced features

Hackathon (Days 3&4):

  • A two-day hackathon provides participants with the opportunity to consolidate skills and techniques, by applying them to their own workflow.

Requirements

Hackathon Teams

Solo participants and teams of up to 5 researchers – from workflow intensive science domains – are encouraged to attend.

In the form below, please provide details on the pipeline: a title, a short description and the list of required software packages. Ensure you choose a pipeline for which you have a sample dataset available for testing.  When you register, submit a team name on the registration form.

Cost

There is a registration fee of $200 per person, with an early bird discounted rate of $100 per person if registering before 18 October.

Prices are inclusive of morning/afternoon teas/coffees and lunch for the entirety of the event.

Payment details will be provided after registrations close.

Registration

Places are limited, so if you are interested, please complete the following form.

Registrations will close on 1 November.

 

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Further information please email: Marco DeLaPierre (Marco.delapierre@pawsey.org.au)

Organised by:

Nextflow