To install this package, start R and enter:

## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("EnrichmentBrowser")

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

EnrichmentBrowser

Seamless navigation through combined results of set-based and network-based enrichment analysis

Bioconductor version: 3.1

The EnrichmentBrowser package implements essential functionality for the enrichment analysis of gene expression data. The analysis combines the advantages of set-based and network-based enrichment analysis in order to derive high-confidence gene sets and biological pathways that are differentially regulated in the expression data under investigation. Besides, the package facilitates the visualization and exploration of such sets and pathways.

Author: Ludwig Geistlinger

Maintainer: Ludwig Geistlinger <Ludwig.Geistlinger at bio.ifi.lmu.de>

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

Installation

To install this package, start R and enter:

## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("EnrichmentBrowser")

Documentation

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

browseVignettes("EnrichmentBrowser")

 

PDF R Script EnrichmentBrowser Manual
PDF   Reference Manual
Text   NEWS

Details

biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, Microarray, Network, NetworkEnrichment, Pathways, RNASeq, ReportWriting, Software, Visualization
Version 1.2.2
In Bioconductor since BioC 3.0 (R-3.1) (1 year)
License Artistic-2.0
Depends R (>= 3.0.0), Biobase, GSEABase, pathview
Imports AnnotationDbi, ComplexHeatmap, DESeq2, EDASeq, GenomicRanges, GO.db, KEGGREST, KEGGgraph, MASS, PathNet, ReportingTools, Rgraphviz, S4Vectors, SparseM, SPIA, biocGraph, biomaRt, edgeR, geneplotter, graph, hwriter, limma, mixtools, neaGUI, npGSEA, safe, stringr, topGO
LinkingTo
Suggests ALL, BiocStyle, airway, hgu95av2.db
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source EnrichmentBrowser_1.2.2.tar.gz
Windows Binary EnrichmentBrowser_1.2.2.zip
Mac OS X 10.6 (Snow Leopard) EnrichmentBrowser_1.2.2.tgz
Mac OS X 10.9 (Mavericks) EnrichmentBrowser_1.2.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/EnrichmentBrowser/tree/release-3.1
Package Short Url http://bioconductor.org/packages/EnrichmentBrowser/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Fred Hutchinson Cancer Research Center