EGAD

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see EGAD.

Extending guilt by association by degree


Bioconductor version: 3.6

The package implements a series of highly efficient tools to calculate functional properties of networks based on guilt by association methods.

Author: Sara Ballouz [aut, cre], Melanie Weber [aut, ctb], Paul Pavlidis [aut], Jesse Gillis [aut, ctb]

Maintainer: Sara Ballouz <sballouz at cshl.edu>

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

Installation

To install this package, start R (version "3.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("EGAD")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("EGAD")
"EGAD user guide" PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews FunctionalGenomics, FunctionalPrediction, GenePrediction, GraphAndNetwork, Network, NetworkEnrichment, Software, SystemsBiology
Version 1.6.0
In Bioconductor since BioC 3.3 (R-3.3) (8 years)
License GPL-2
Depends R (>= 3.3)
Imports gplots, Biobase, GEOquery, limma, arrayQualityMetrics, impute, RColorBrewer, zoo, igraph, plyr, Matrix, MASS, RCurl, affy
System Requirements
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Suggests knitr, rmarkdown, testthat
Linking To
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Depends On Me
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Build Report Build Report

Package Archives

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

Source Package EGAD_1.6.0.tar.gz
Windows Binary EGAD_1.6.0.zip
Mac OS X 10.11 (El Capitan) EGAD_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/EGAD
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/EGAD
Package Short Url https://bioconductor.org/packages/EGAD/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.6 Source Archive