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In the GDC Data Portal, when I filter by Experimental Strategy (e.g., RNA-Seq) in the Cohort Builder Available Data filter, why is this filter not working when I navigate to Repository?

Submitted by gaheens on

Filtering in Cohort Builder results in a set of cases. Cases typically have available data for multiple Experimental Strategies (e.g., cases with RNA-Seq data can also have DNA-Seq data). As such, when navigating to Repository additional data besides RNA-Seq data is displayed. Repository filters are file based. When filtering Repository by Experimental Strategy (e.g., RNA-Seq) only files associated with the Experimental Strategy are displayed.

Date: Saturday, July 5, 2025
Time: 1:25 PM - 1:25 PM EDT
Location: Web Conference (See WebEx information below)
Speakers:
Dr. Bill Wysocki, Director of User Services, University of Chicago (UChicago)

Join us for a deep dive into GDC 2.0, where the focus is on empowering data scientists and developers to integrate their analysis tools with the GDC. This webinar will introduce the GDC Analysis Tool Software Development Kit (SDK), a React-based framework that simplifies the integration process by abstracting cohort selection and data access. We’ll guide you through the SDK's features, including how it interacts with the GDC API for efficient data retrieval and analysis. You'll also explore essential resources like the GDC component library and style guide, all designed to help create and integrate powerful analysis tools within the GDC. An overview of the GDC Analysis Tool Challenge, a collaborative competition aimed at enhancing cancer research by integrating innovative analysis tools with the GDC, is also provided. 


Intended Audience

This webinar is designed for data scientists and developers who are interested in integrating with the GDC and learning more about the GDC Analysis Tool Software Development Kit (SDK) and supporting resources. This webinar is also intended for organizations wanting to join the GDC Analysis Tool Challenge, a collaborative competition aimed at enhancing cancer research by integrating innovative analysis tools with the GDC.

Abstract

Join us for a deep dive into GDC 2.0, where the focus is on empowering data scientists and developers to integrate their analysis tools with the Genomic Data Commons (GDC). This webinar will introduce the GDC Analysis Tool Software Development Kit (SDK), a React-based framework that simplifies the integration process by abstracting cohort selection and data access. We’ll guide you through the SDK's features, including how it interacts with the GDC API for efficient data retrieval and analysis. You'll also explore essential resources like the GDC component library and style guide, all designed to help create and integrate powerful analysis tools within the GDC. An overview of the GDC Analysis Tool Challenge (active September 1, 2024) will also be provided. The GDC Analysis Tool Challenge is a collaborative competition aimed at enhancing cancer research by integrating innovative analysis tools with the GDC.

For additional details, please see the Integrating Analysis Tools with GDC 2.0 Webinar Presentation.

Included Topics
  • Introduction to the GDC Analysis Tool SDK 
  • Examination of the GDC Component Library and Style Guide 
  • Guidelines for utilizing the GDC API for data retrieval and analysis
  • Walkthrough of integrating an analysis tool into the GDC Data Portal Analysis Center 
  • Overview of the GDC Analysis Tool Challenge (active September 1, 2024)
Webex Information

Integrating Analysis Tools with GDC 2.0: Harnessing the Power of the GDC SDK

  • Monday, September 16, 2024
  • 2:00 pm    |    Eastern Standard Time (New York, GMT-04:00)    |    1 hr
  • Meeting number (access code): 2316 102 8419
  • Meeting password: n2X2HmmMp@9 (62924666 from phones and video systems)

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