Communicating Workflow Complexity across Ecosystems: Linking CWL and BCO to update the BCO Public Database with the BCO App

Presenter: Philip Webster, Velsera (Seven Bridges)


  • Session 1: :earth_americas: :earth_africa: (Americas-EMEA) Monday, February 27th 09:00 - 13:00 US EST / 14:00 - 18:00 UTC
  • Session 3: :earth_asia: :earth_americas: (APAC-Americas) Thursday, March 2nd, 19:00 - 23:00 US EST
    Friday, March 3rd, 00:00 - 04:00 UTC / 09:00 - 13:00 Japanese Standard Time

BioCompute Objects (BCOs) were created to standardize metadata schema and parameters for sequencing data analysis workflows. To support the adoption of BCO as the standard and regulatory submissions for federal agencies, we developed the BCO App, a web application that rapidly generates BCOs. For our examples, we use a publicly available workflow to prepare data for variant calling. The workflow is the public component of an in-progress scientific study that aims to use genetic information to guide cardiovascular disease treatment. We specifically show that the BCO app can generate a BCO from task and workflow information located on either the Cancer Genomics Cloud (CGC) or a JSON file. We then use a custom script that pulls the execution information from the BCO execution domain, allowing for local execution. We include expected results within the BCO error domain, allowing bioinformaticians to verify results from the ported workflow.

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