Version Compatibility

Reference examples tested with: scanpy 1.10+, scDblFinder 1.16+, Seurat 5.0+

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

• Python: pip show <package> then help(module.function) to check signatures
• R: packageVersion('<pkg>') then ?function_name to verify parameters

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

Doublet Detection

"Remove doublets from my data" -> Flag droplets that captured two or more cells, which masquerade as fake intermediate cell states.

• Python: sc.pp.scrublet() per sample on raw counts
• R: scDblFinder(sce, samples=...) per sample on raw counts

Governing Principle