bumphunter
This is the development version of bumphunter; for the stable release version, see bumphunter.
All Bioconductor versions of bumphunter
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12
Bump Hunter
Bioconductor version: 3.24 · Package version: 1.55.1
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"):
Rafael A. Irizarry, Martin Aryee, Kasper Daniel Hansen, Hector Corrada Bravo. bumphunter: Bump Hunter. doi:10.18129/B9.bioc.bumphunter, R package version 1.55.1, https://bioconductor.org/packages/bumphunter.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("bumphunter")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.55.1 |
| License | Artistic-2.0 |
| URL | https://github.com/rafalab/bumphunter |
| Last updated | 2026-05-25 |
| In Bioconductor since | BioC 2.12 (R-3.0) (13 years) |
| Downloads rank | 139 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DNAMethylation, Epigenetics, ImmunoOncology, Infrastructure, MultipleComparison, Software |
| Package Short Url | https://bioconductor.org/packages/bumphunter/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("bumphunter")| The bumphunter user's guide | R Script | |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | bumphunter_1.55.1.tar.gz |
| Windows binary (x86_64) | bumphunter_1.55.1.zip |
| macOS binary (arm64) | bumphunter_1.55.1.tgz |
| macOS binary (x86_64) | bumphunter_1.55.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/bumphunter |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/bumphunter |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 3.5), S4Vectors (>= 0.9.25), IRanges (>= 2.3.23), Seqinfo, GenomicRanges, foreach, iterators, methods, parallel, locfit
Imports: matrixStats, limma, doRNG, BiocGenerics, utils, GenomicFeatures, AnnotationDbi, stats
Suggests: testthat, RUnit, doParallel, GenomeInfoDb, txdbmaker, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene
Reverse dependencies
Depends On Me (1): minfi
Imports Me (12): ChAMP, coMethDMR, DAMEfinder, derfinder, dmrseq, epimutacions, epivizr, GenomicState, methylCC, recountWorkflow, rnaEditr, vmrseq
Suggests Me (4): bigmelon, derfinderPlot, epivizrData, regionReport