SUMMARY.md

Table of contents

• BioData Catalyst Documentation - Ecosystem Overview

Community

• Statement of Conduct
• Who We Are
• BioData Catalyst Forum

Data Access

• Understanding Access Requirements for BioData Catalyst
• How to check what data you have access to on BioData Catalyst

Data Generators

• BioData Catalyst Data Generator Guidance

Explore available data

• PIC-SURE for BioData Catalyst User Guide
  • Authorization and Access
  • Available Data
  • Harmonized Data
  • What Can I Access?
  • Search
  • Data Analysis Using the PIC-SURE API
  • PIC-SURE API Documentation
• Discovering Data Using Gen3
  • Dictionary
  • Exploration
  • Query
  • Workspace
  • Profile
  • PFB Files
  • Current Projects

Analyze data

• Seven Bridges
  • Knowledge Center
  • Getting Started Guide
  • Comprehensive Analysis Tips
  • Troubleshooting Tasks
  • GWAS with GENESIS workflows
  • Annotation Explorer
• Terra
  • Getting Started with Terra
  • Getting Started with BioData Catalyst Data from Gen3
  • Using Your Own Data with Terra
  • Types of Analysis in Terra
  • Batch Analysis with Workflows
    • Bringing Your Own Tools: Developing Custom Workflows
  • Interactive Analysis with Jupyter Notebooks
    • Code Library for BioData Catalyst
  • Controlling Cloud Costs
  • Performing GWAS in Terra with example costs
  • Tutorials
  • Videos
  • Frequently Asked Questions
  • Onboarding Syllabus
  • Full Online Documentation for Terra
• Dockstore
  • Launch workflows with BioData Catalyst
  • Discover our catalog
  • Intro to Docker, WDL, CWL
  • Dockstore Forum
  • Contribute to the community

Community Tools & Integration

• Bring Your Own Tool(s) to BioData Catalyst
  • BYOT Glossary
  • Working with Docker
  • Creating, testing, and scaling WDL workflows
  • Creating, testing, and scaling CWL workflows
  • Version Control, Publishing, and Validation of Workflows
  • Advanced Topics
• Import a Dockstore App With Seven Bridges

BioData Catalyst Resources

• BioData Catalyst Glossary
• BioData Catalyst Citation and Acknowledgement

BioData Catalyst Release Notes

• 2021-01-15 BioData Catalyst Ecosystem Release Notes
• 2020-10-23 BioData Catalyst Ecosystem Release Notes
• 2020-08-24 BioData Catalyst Ecosystem Release Notes
• 2020-04-02 BioData Catalyst Ecosystem Release Notes

Strategic Planning

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• Strategic Planning

Request for Comments

• Data Upload and Download Policy and Recommendations For Users