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This PR:

  • Adds two additional examples to be run in Notebooks Hub, adapted from the original tutorials in the NIHCloudLabAWS repo
    • GWAS - runs gwas on coat color using plink and other bioinformatics tools. GWAS info
    • Pangolin - runs a standard covid bioinformatics pipeline using the Pangolin workflow. Pangolin documentation
  • Adapts tutorials to be run in Notebooks Hub by removing usage of AWS services (no aws account/configuration needed)
  • Includes conda environment file + lua file
    • Note: When building environment for tutorials that use R kernel, make sure kernel.json file has full path to R

@sweep-ai-deprecated
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Apply Sweep Rules to your PR?

  • Apply: Leftover TODOs in the code should be handled.
  • Apply: All new business logic should have corresponding unit tests in the tests/ directory.
  • Apply: Any clearly inefficient or repeated code should be optimized or refactored.

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