To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("EnrichmentBrowser")
In most cases, you don't need to download the package archive at all.
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see EnrichmentBrowser.
Bioconductor version: 3.3
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, Gergely Csaba, Ralf Zimmer
Maintainer: Ludwig Geistlinger <Ludwig.Geistlinger at bio.ifi.lmu.de>
Citation (from within R,
enter citation("EnrichmentBrowser")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("EnrichmentBrowser")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("EnrichmentBrowser")
R Script | EnrichmentBrowser Manual | |
Reference Manual | ||
Text | NEWS |
biocViews | DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, Microarray, Network, NetworkEnrichment, Pathways, RNASeq, ReportWriting, Software, Visualization |
Version | 2.2.3 |
In Bioconductor since | BioC 3.0 (R-3.1) (2 years) |
License | Artistic-2.0 |
Depends | R (>= 3.0.0), Biobase, GSEABase, pathview |
Imports | AnnotationDbi, ComplexHeatmap, DESeq2, EDASeq, GO.db, KEGGREST, KEGGgraph, MASS, ReportingTools, Rgraphviz, S4Vectors, SPIA, SummarizedExperiment, biocGraph, edgeR, geneplotter, graph, hwriter, limma, safe, topGO |
LinkingTo | |
Suggests | ALL, BiocStyle, airway, hgu95av2.db |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | EnrichmentBrowser_2.2.3.tar.gz |
Windows Binary | EnrichmentBrowser_2.2.3.zip |
Mac OS X 10.9 (Mavericks) | EnrichmentBrowser_2.2.3.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/EnrichmentBrowser/tree/release-3.3 |
Package Short Url | http://bioconductor.org/packages/EnrichmentBrowser/ |
Package Downloads Report | Download Stats |
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