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("ELMER")

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

ELMER

 

Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes

Bioconductor version: Release (3.5)

ELMER is designed to use DNA methylation and gene expression from a large number of samples to infere regulatory element landscape and transcription factor network in primary tissue.

Author: Lijing Yao [aut], Ben Berman [aut], Peggy Farnham [aut], Hui Shen [ctb], Peter Laird [ctb], Simon Coetzee [cre, ctb]

Maintainer: Simon Coetzee <Simon.Coetzee at cshs.org>

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

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("ELMER")

Documentation

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

browseVignettes("ELMER")

 

PDF R Script ELMER: Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Methylomes
PDF   Reference Manual

Details

biocViews DNAMethylation, GeneExpression, GeneRegulation, MotifAnnotation, Software
Version 1.6.0
In Bioconductor since BioC 3.2 (R-3.2) (2 years)
License GPL-3
Depends R (>= 3.2.0), IlluminaHumanMethylation450kanno.ilmn12.hg19, Homo.sapiens, ELMER.data
Imports methods, BiocGenerics, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, ggplot2, reshape, grid, gridExtra, minfi, GenomicFeatures
LinkingTo
Suggests parallel, snow, BiocStyle, knitr, R.utils, downloader
SystemRequirements
Enhances
URL
Depends On Me
Imports Me TCGAbiolinksGUI
Suggests Me
Build Report  

Package Archives

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

Package Source ELMER_1.6.0.tar.gz
Windows Binary ELMER_1.6.0.zip
Mac OS X 10.11 (El Capitan) ELMER_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ELMER
Package Short Url http://bioconductor.org/packages/ELMER/
Package Downloads Report Download Stats

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