To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("edge")
In most cases, you don't need to download the package archive at all.
edge
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see edge.
Extraction of Differential Gene Expression
Bioconductor version: 3.4
The edge package implements methods for carrying out differential expression analyses of genome-wide gene expression studies. Significance testing using the optimal discovery procedure and generalized likelihood ratio tests (equivalent to F-tests and t-tests) are implemented for general study designs. Special functions are available to facilitate the analysis of common study designs, including time course experiments. Other packages such as snm, sva, and qvalue are integrated in edge to provide a wide range of tools for gene expression analysis.
Author: John D. Storey, Jeffrey T. Leek and Andrew J. Bass
Maintainer: John D. Storey <jstorey at princeton.edu>, Andrew J. Bass <ajbass at princeton.edu>
Citation (from within R,
enter citation("edge")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("edge")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("edge")
| R Script | edge Package | |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | DataImport, DifferentialExpression, GeneExpression, MultipleComparison, Regression, Software, TimeCourse |
| Version | 2.6.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (2 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 3.1.0), Biobase |
| Imports | methods, splines, sva, snm, jackstraw, qvalue(>= 1.99.0), MASS |
| LinkingTo | |
| Suggests | testthat, knitr, ggplot2, reshape2 |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/jdstorey/edge |
| BugReports | https://github.com/jdstorey/edge/issues |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | edge_2.6.0.tar.gz |
| Windows Binary | edge_2.6.0.zip (32- & 64-bit) |
| Mac OS X 10.9 (Mavericks) | edge_2.6.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/edge/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/edge/ |
| Package Downloads Report | Download Stats |
Documentation »
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