Version Compatibility

Reference examples tested with: scanpy 1.10+, Seurat 5.0+, scran 1.30+

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.

Single-Cell Preprocessing

"Preprocess my scRNA-seq data" -> Remove bad barcodes, correct technical biases, and select informative genes before dimensionality reduction.

• Python: calculate_qc_metrics() -> filter -> normalize_total()+log1p() -> highly_variable_genes()
• R: QC -> NormalizeData() or SCTransform() -> FindVariableFeatures() -> ScaleData()

Governing Principle