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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.
EnrichmentBrowser
|
Seamless navigation through combined results of set-based and network-based enrichment analysis
Bioconductor version: 3.2
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")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
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")
| EnrichmentBrowser Manual | ||
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, Microarray, Network, NetworkEnrichment, Pathways, RNASeq, ReportWriting, Software, Visualization |
| Version | 2.0.15 |
| In Bioconductor since | BioC 3.0 (R-3.1) (1.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.0.0), Biobase, GSEABase, pathview |
| Imports | AnnotationDbi, ComplexHeatmap, DESeq2, EDASeq, GO.db, KEGGREST, KEGGgraph, MASS, PathNet, ReportingTools, Rgraphviz, S4Vectors, SparseM, SPIA, SummarizedExperiment, biocGraph, biomaRt, edgeR, geneplotter, graph, hwriter, limma, mixtools, neaGUI, npGSEA, safe, stringr, topGO |
| LinkingTo | |
| Suggests | ALL, BiocStyle, airway, hgu95av2.db, testthat |
| 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_2.0.15.tar.gz |
| Windows Binary | EnrichmentBrowser_2.0.15.zip |
| Mac OS X 10.6 (Snow Leopard) | EnrichmentBrowser_2.0.0.tgz |
| Mac OS X 10.9 (Mavericks) | EnrichmentBrowser_2.0.15.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/EnrichmentBrowser/tree/release-3.2 |
| Package Short Url | http://bioconductor.org/packages/EnrichmentBrowser/ |
| Package Downloads Report | Download Stats |
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