Version Compatibility

Reference examples tested with: GATK 4.5+, ggplot2 3.5+, matplotlib 3.8+, numpy 1.26+, pandas 2.2+, seaborn 0.13+

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.

CNV Visualization

"Plot my copy number profile" → Create genome-wide scatter plots, segmentation views, and multi-sample heatmaps from CNV caller output.

• CLI: cnvkit.py scatter, cnvkit.py diagram, cnvkit.py heatmap
• Python: matplotlib for custom CNV plots
• R: ggplot2 for publication figures