neaGUI

An R package to perform the network enrichment analysis (NEA).

Bioconductor version: Development (3.0)

neaGUI is an easy to use R package developed to perform the network enrichment analysis (NEA) proposed by Alexeyenko et al. (2012). The NEA method extends the overlap statistics in GSEA to network links between genes in the experimental set and those in the functional categories by exploiting biological information in terms of gene interaction network. The neaGUI requires the following R packages: tcltk, KEGG.db, GO.db, reactome.db, org.Hs.eg.db, AnnotationDbi, and hwriter.

Author: Setia Pramana, Woojoo Lee, Yudi Pawitan

Maintainer: Setia Pramana <setia.pramana at ki.se>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("neaGUI")

To cite this package in a publication, start R and enter:

    citation("neaGUI")

Documentation

PDF R Script neaGUI Vignette
PDF   Reference Manual

Details

biocViews DifferentialExpression, GUI, Microarray, Software
Version 1.3.0
In Bioconductor since BioC 2.13 (R-3.0)
License GPL-2
Depends tcltk
Imports hwriter
Suggests AnnotationDbi, org.Hs.eg.db, KEGG.db, GO.db, reactome.db, RUnit, GOstats, hwriter
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source neaGUI_1.3.0.tar.gz
Windows Binary neaGUI_1.3.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) neaGUI_1.3.0.tgz
Mac OS X 10.9 (Mavericks)
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