Version Compatibility

Reference examples tested with: ggplot2 3.5+, limma 3.58+, matplotlib 3.8+, numpy 1.26+, pandas 2.2+, scikit-learn 1.4+, scipy 1.12+, 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

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

Proteomics Quality Control

"Check the quality of my proteomics data" → Assess data quality through identification rates, missing value patterns, replicate correlation, intensity distributions, and batch effect detection before downstream analysis.

• Python: pandas + matplotlib/seaborn for QC metrics and visualization
• R: limma::plotMDS(), correlation heatmaps, CV distributions

Sample Quality Metrics