Version Compatibility

Reference examples tested with: Quarto 1.4+, DESeq2 1.42+, ggplot2 3.5+, matplotlib 3.8+, scanpy 1.10+

Before using code patterns, verify installed versions match. If versions differ:

• CLI: <tool> --version then <tool> --help to confirm flags

If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying.

Quarto Reports

"Create a Quarto analysis report" → Write reproducible documents mixing code (Python/R), narrative, and figures that render to HTML/PDF/Word.

• CLI: quarto render report.qmd --to html

Basic Document