FireCloud Workshop

This is day 3 of the “Bioinformatics in the Cloud” workshop. In this session, you will learn about the platform FireCloud. We will learn how to run workflows, upload data, and create methods.

Workshop Outline:

• Introduction to FireCloud from Broad pipeline outreach coordinator Kate Noblett (~10min)
• FireCloud Intro Presentation (~15min)
• FireCloud Guided Tour (~25min)
• FireCloud $5 Pipeline Hands-On (~15min)
• Break (~5min)
• FireCloud Custom Data and Method Hands-On (~40min)
• Explore FireCloud (Rest of Workshop Time)

Sections:

• Prerequisites
• Five dollar genome analysis pipeline
  • Find the pipeline
  • Clone the workspace
  • Find the workflow
  • Select the pipeline
  • Launch the analysis
  • Select the sample
  • Monitor the pipeline
• Upload data and run a custom method
  • Setup
  • Create a workspace in FireCloud
  • Add workspace attributes
  • Set up data model
  • Put WDL on FireCloud
  • Import configuration to workspace
  • Fill in method config
  • Run