Version Compatibility

Reference examples tested with: MAGeCK 0.5+, pandas 2.2+, pertpy 0.7+, scanpy 1.10+

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.

Perturb-seq Analysis

"Analyze my Perturb-seq CRISPR screen" → Link guide RNA assignments to transcriptional phenotypes in pooled CRISPR screens with single-cell readout to identify gene function.

• Python: pertpy.tl.Mixscape(adata) for perturbation classification, pertpy.tl.Augur for prioritization

Load and Annotate Perturbations