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Automated Pipelines: A Simple Solution to Complex Workflows

 

Your computational research is complex enough. Isn’t there a way to make the process more simple?

Yes, there is! With the Code Ocean automated pipeline tool, you can connect multiple coding modules (Compute Capsules) on the Code Ocean platform in a drag-and-drop interface that any collaborator can use. No code required!
Straight from the Code Ocean digital lab of open, exportable, reproducible, and interoperable science, pipelines let you easily create and share complex workflows for your organization.

You’ll see how to:

  • Seamlessly swap modules or adjust parameters within individual Capsules at any step a different methodology is needed
  • Automatically generate Nextflow scripts for each pipeline, making external sharing easy
  • Implement an RNA-seq workflow in a Code Ocean pipeline, from raw reads to counts matrix using FastQC, Cutadapt, Trim Galore, and STAR
  • Make complex analysis easy to organize, configure, and adjust
  • And more!

Speakers

Frank Zappulla

Head of Scientific Computing

Frank Zappulla

Head of Scientific Computing

Frank Zappulla

Frank is Head of Scientific Computing at Code Ocean. With 15+ years of experience in molecular biology research and computing fields, he has had the opportunity to work in microbiology labs in pharma and academia, a vaccine development group with the federal government, and research IT supporting researchers at a large non-profit laboratory focused on genetics and genomics. He is passionate about helping researchers build and develop computational skills and enjoys sharing his knowledge with others.