Bump Hunter

Bioconductor version: Release (3.19)

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 ds.dfci.harvard.edu>

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


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:

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


biocViews DNAMethylation, Epigenetics, ImmunoOncology, Infrastructure, MultipleComparison, Software
Version 1.46.0
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
URL https://github.com/rafalab/bumphunter
See More
Suggests testthat, RUnit, doParallel, txdbmaker, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene
Linking To
Depends On Me minfi
Imports Me brainflowprobes, ChAMP, coMethDMR, DAMEfinder, derfinder, dmrseq, epimutacions, epivizr, GenomicState, methylCC, recountWorkflow, rnaEditr
Suggests Me bigmelon, derfinderPlot, epivizrData, regionReport
Links To Me
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Package Archives

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

Source Package bumphunter_1.46.0.tar.gz
Windows Binary bumphunter_1.46.0.zip
macOS Binary (x86_64) bumphunter_1.46.0.tgz
macOS Binary (arm64) bumphunter_1.46.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/bumphunter
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/bumphunter
Bioc Package Browser https://code.bioconductor.org/browse/bumphunter/
Package Short Url https://bioconductor.org/packages/bumphunter/
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