To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("bumphunter")

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

bumphunter

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see bumphunter.

Bump Hunter

Bioconductor version: 3.4

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("https://bioconductor.org/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 1.14.0
In Bioconductor since BioC 2.12 (R-3.0) (4 years)
License Artistic-2.0
Depends R (>= 2.10), S4Vectors(>= 0.9.25), IRanges(>= 2.3.23), GenomeInfoDb, GenomicRanges, foreach, iterators, methods, parallel, locfit
Imports matrixStats, limma, doRNG, BiocGenerics, utils, GenomicFeatures, AnnotationDbi
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
Suggests Me derfinderPlot, epivizrData, regionReport
Build Report

Package Archives

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

Package Source bumphunter_1.14.0.tar.gz
Windows Binary bumphunter_1.14.0.zip
Mac OS X 10.9 (Mavericks) bumphunter_1.14.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/bumphunter/tree/release-3.4
Package Short Url http://bioconductor.org/packages/bumphunter/
Package Downloads Report Download Stats

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