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hammerlab / cohorts

Utilities for analyzing mutations and neoepitopes in patient cohorts
Apache License 2.0
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Make cohorts more workflow-engine and cloud storage friendly #226

Open armish opened 7 years ago

armish commented 7 years ago
  1. [x] Implement helper functions/wrappers to allow working against a bucket instead of an `NFS *server. Mostly addressed by #219.
  2. [ ] Allow more flexible Sample, Patient, and Cohorts object creation procedures (c.f. motivation: #220) and try to extract data reading/manipulation logic out of the main cohorts module to keep it as much clutter-free as possible (related #211 and #218).
  3. [ ] Provide some basic sanity check scripts/solutions out of the pip to prevent common/known pitfalls to be captured upon common git commands (will demo potential use cases for this soon). ...