Version Compatibility

Reference examples tested with: GenomicRanges 1.54+, deepTools 3.5+

Before using code patterns, verify installed versions match. If versions differ:

• 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.

ChIP-seq Visualization

"Create a heatmap of ChIP-seq signal around peaks" → Generate signal heatmaps, profile plots, and genome browser tracks showing enrichment patterns around genomic features.

• CLI: deeptools computeMatrix reference-point → plotHeatmap
• R: Gviz, ChIPseeker::plotAvgProf()

deepTools - Compute Matrix