Generate normalized bigWig coverage tracks from BAM with deepTools bamCoverage/bamCompare (RPKM/CPM/RPGC), summarize with multiBamSummary, and plot TSS/region signal with computeMatrix + plotHeatmap/plotProfile; pyBigWig for programmatic access. Use when normalizing BAM to bigWig, computing ChIP/inp
Generate normalized bigWig coverage tracks from BAM with deepTools bamCoverage/bamCompare (RPKM/CPM/RPGC), summarize with multiBamSummary, and plot TSS/region signal with computeMatrix + plotHeatmap/plotProfile; pyBigWig for programmatic access. Use when normalizing BAM to bigWig, computing ChIP/input log2 ratio tracks, making TSS metagene heatmaps, or querying bigWig values in Python.