Add modkit integration for heatmap workflow#25
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jayhesselberth merged 1 commit intodevelfrom Mar 28, 2026
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Add read_bedmethyl() and summarize_mod_calls() to convert modkit output into formats compatible with the existing heatmap pipeline. Add vignette section demonstrating both workflows.
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Summary
read_bedmethyl()to read 18-column bedMethyl files frommodkit pileupsummarize_mod_calls()to compute per-position modification frequency frommodkit extractoutputcompute_bcerror_delta()→prep_mod_heatmap()→plot_mod_heatmap()pipelineTest plan
summarize_mod_calls()with bundled ecoli data (structure, filtering by refs, min_reads)read_bedmethyl()with synthetic bedMethyl data (structure, min_cov filtering)summarize_mod_calls()output feeds intocompute_bcerror_delta()pkgdown::build_article("heatmap")