To install this package, start R and enter:

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

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

chipenrich

 

   

Gene Set Enrichment For ChIP-seq Peak Data

Bioconductor version: Release (3.4)

ChIP-Enrich performs gene set enrichment testing using peaks called from a ChIP-seq experiment. The method empirically corrects for confounding factors such as the length of genes, and the mappability of the sequence surrounding genes.

Author: Ryan P. Welch [aut, cph], Chee Lee [aut], Raymond G. Cavalcante [aut, cre], Laura J. Scott [ths], Maureen A. Sartor [ths]

Maintainer: Raymond G. Cavalcante <rcavalca at umich.edu>

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

Installation

To install this package, start R and enter:

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

Documentation

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PDF   Reference Manual
Text   NEWS

Details

biocViews Bioinformatics, Enrichment, GeneSetEnrichment, Software
Version 1.12.0
In Bioconductor since BioC 2.13 (R-3.0) (3 years)
License GPL-3
Depends R (>= 3.1.0)
Imports chipenrich.data, GenomeInfoDb, GenomicRanges, grid, IRanges, lattice, latticeExtra, methods, mgcv, parallel, plyr, rms, S4Vectors, stringr
LinkingTo
Suggests BiocStyle, devtools, knitr, rmarkdown, roxygen2, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source chipenrich_1.12.0.tar.gz
Windows Binary chipenrich_1.12.0.zip
Mac OS X 10.9 (Mavericks) chipenrich_1.12.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/chipenrich/tree/release-3.4
Package Short Url http://bioconductor.org/packages/chipenrich/
Package Downloads Report Download Stats

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