CompBio template: R (renv) + Python (Poetry) in separate Dev Containers

Before to start

1. Modify the .devcontainer/.env file with the path for your raw data.

Quick start (VS Code)

1. Open this repository in VS Code.
2. Command Palette → Dev Containers: Reopen in Container
3. Choose either:
   • project (R + renv) for Bioconductor/ggplot work
   • project (Python + Poetry) for ML/AI work

Both containers mount the same repository, so data/ and results/ are shared.

R workflow (inside R container)

• Initialize renv (first time): make r-init
• Restore: make r-restore
• Snapshot: make r-snapshot
• Smoke test: make r-check

Python workflow (inside Python container)

• Install deps: make py-install
• Lock: make py-lock
• Smoke test: make py-check

CI

GitHub Actions builds both images and runs smoke tests on push/PR.