Registration Open for Bioc2024
Early registration discount pricing ends May 31!


This is the development version of bumphunter; for the stable release version, see bumphunter.

Bump Hunter

Bioconductor version: Development (3.20)

Tools for finding bumps in genomic data

Author: Rafael A. Irizarry [aut], Martin Aryee [aut], Kasper Daniel Hansen [aut], Hector Corrada Bravo [aut], Shan Andrews [ctb], Andrew E. Jaffe [ctb], Harris Jaffee [ctb], Leonardo Collado-Torres [ctb], Tamilselvi Guharaj [cre]

Maintainer: Tamilselvi Guharaj <selvi at>

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


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

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

# The following initializes usage of Bioc devel


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:

The bumphunter user's guide PDF R Script
Reference Manual PDF


biocViews DNAMethylation, Epigenetics, ImmunoOncology, Infrastructure, MultipleComparison, Software
Version 1.47.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License Artistic-2.0
Depends R (>= 3.5), S4Vectors(>= 0.9.25), IRanges(>= 2.3.23), GenomeInfoDb, GenomicRanges, foreach, iterators, methods, parallel, locfit
Imports matrixStats, limma, doRNG, BiocGenerics, utils, GenomicFeatures, AnnotationDbi, stats
System Requirements
See More
Suggests testthat, RUnit, doParallel, txdbmaker,, TxDb.Hsapiens.UCSC.hg19.knownGene
Linking To
Depends On Me minfi
Imports Me coMethDMR, DAMEfinder, derfinder, dmrseq, epimutacions, epivizr, methylCC, rnaEditr, GenomicState, recountWorkflow
Suggests Me bigmelon, derfinderPlot, epivizrData, regionReport
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package bumphunter_1.47.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) bumphunter_1.47.0.tgz
macOS Binary (arm64) bumphunter_1.47.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats