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Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results

Bioconductor version: Release (3.19)

Generate HTML or PDF reports to explore a set of regions such as the results from annotation-agnostic expression analysis of RNA-seq data at base-pair resolution performed by derfinder. You can also create reports for DESeq2 or edgeR results.

Author: Leonardo Collado-Torres [aut, cre] , Andrew E. Jaffe [aut] , Jeffrey T. Leek [aut, ths]

Maintainer: Leonardo Collado-Torres <lcolladotor at>

Citation (from within R, enter citation("regionReport")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Example report using bumphunter results HTML R Script
Introduction to regionReport HTML R Script
Reference Manual PDF


biocViews Coverage, DifferentialExpression, DifferentialMethylation, DifferentialPeakCalling, ImmunoOncology, QualityControl, RNASeq, ReportWriting, Sequencing, Software, Transcription, Visualization
Version 1.38.0
In Bioconductor since BioC 3.0 (R-3.1) (10 years)
License Artistic-2.0
Depends R (>= 3.2)
Imports BiocStyle(>= 2.5.19), derfinder(>= 1.25.3), DEFormats, DESeq2, GenomeInfoDb, GenomicRanges, knitr (>= 1.6), knitrBootstrap (>= 0.9.0), methods, RefManageR, rmarkdown (>= 0.9.5), S4Vectors, SummarizedExperiment, utils
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Suggests BiocManager, biovizBase, bumphunter(>= 1.7.6), derfinderPlot(>= 1.29.1), sessioninfo, DT, edgeR, ggbio(>= 1.35.2), ggplot2, grid, gridExtra, IRanges, mgcv, pasilla, pheatmap, RColorBrewer, TxDb.Hsapiens.UCSC.hg19.knownGene, whisker
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Follow Installation instructions to use this package in your R session.

Source Package regionReport_1.38.0.tar.gz
Windows Binary
macOS Binary (x86_64) regionReport_1.38.0.tgz
macOS Binary (arm64) regionReport_1.38.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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