Hello Nextflow!
This workshop will put you on the path to writing your own reproducible and scalable scientific workflows using Nextflow. You will learn how to use core Nextflow components to build, run and troubleshoot a simple multi-step workflow.
Trainers
- Fred Jaya, Sydney Informatics Hub, University of Sydney
- Ziad Al Bkhetan, Australian BioCommons
- Georgie Samaha, Sydney Informatics Hub, University of Sydney
Prerequisites
This is an intermediate workshop for people developing reproducuble bioinformatics workflows.
- Command line and linux skills are essential. The workshop will be conducted in a Unix environment.
- (Strongly recommended) Experience developing reproducible workflows (e.g., bash, CWL, WDL, or Snakemake).
Set up requirements
Please complete the Setup instruction before the workshop. If you have any trouble, please get in contact with us ASAP via Slack.
Code of Conduct
In order to foster a positive and professional learning environment we encourage the following kinds of behaviours at all our events and on our platforms:
- Use welcoming and inclusive language
- Be respectful of different viewpoints and experiences
- Gracefully accept constructive criticism
- Focus on what is best for the community
- Show courtesy and respect towards other community members
- Our full code of conduct, with incident reporting guidelines, is available here.
Workshop schedule
| Time (AEDT) | Activity |
|---|---|
| 13:00 | Welcome and set up |
| 13:20 | Introduction to Nextflow |
| 13:30 | Bioinformatics demo |
| 13:40 | Workshop sections 1-2 |
| 14:30 | BREAK |
| 15:00 | Workshop sections 3-4 |
| 15:50 | Where to next? |
| 16:00 | Workshop end |
Credits and acknowledgements
This workshop event and accompanying materials were developed by the Sydney Informatics Hub, University of Sydney in partnership with Seqera. The workshop was enabled through the Australian BioCommons - BioCLI Platforms Project (NCRIS via Bioplatforms Australia).
