Version Compatibility

Reference examples tested with: MAGeCK 0.5+, ggplot2 3.5+, matplotlib 3.8+, numpy 1.26+, pandas 2.2+

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
• 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.

CRISPR Screen Pipeline

"Analyze my pooled CRISPR screen from FASTQ to hit genes" → Orchestrate guide counting, library representation QC, MAGeCK normalization and testing, multi-method hit calling (BAGEL2, drugZ), and consensus hit identification.

Pipeline Overview