To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ELMER")
In most cases, you don't need to download the package archive at all.
ELMER
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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("https://bioconductor.org/biocLite.R")
biocLite("ELMER")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ELMER")
| R Script | ELMER: Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Methylomes | |
| 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.
| Source Package | 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 |
Documentation »
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