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>

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	1.20.0
In Bioconductor since	BioC 2.12 (R-3.0) (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