To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("bumphunter")

In most cases, you don't need to download the package archive at all.

bumphunter

DOI: 10.18129/B9.bioc.bumphunter    

Bump Hunter

Bioconductor version: Release (3.6)

Tools for finding bumps in genomic data

Author: Rafael A. Irizarry [cre, 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]

Maintainer: Rafael A. Irizarry <rafa at jimmy.harvard.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("bumphunter")

Documentation

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

browseVignettes("bumphunter")

 

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

Details

biocViews DNAMethylation, Epigenetics, Infrastructure, MultipleComparison, Software
Version 1.20.0
In Bioconductor since BioC 2.12 (R-3.0) (4.5 years)
License Artistic-2.0
Depends R (>= 3.4), S4Vectors(>= 0.9.25), IRanges(>= 2.3.23), GenomeInfoDb, GenomicRanges, foreach, iterators, methods, parallel, locfit
Imports matrixStats, limma, doRNG, BiocGenerics, utils, GenomicFeatures, AnnotationDbi, stats
LinkingTo
Suggests testthat, RUnit, doParallel, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene
SystemRequirements
Enhances
URL https://github.com/ririzarr/bumphunter
Depends On Me minfi
Imports Me ChAMP, derfinder, methyvim
Suggests Me derfinderPlot, epivizrData, regionReport
Build Report  

Package Archives

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

Source Package bumphunter_1.20.0.tar.gz
Windows Binary bumphunter_1.20.0.zip
Mac OS X 10.11 (El Capitan) bumphunter_1.20.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/bumphunter
Package Short Url http://bioconductor.org/packages/bumphunter/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: