DOI: 10.18129/B9.bioc.EnrichmentBrowser  

This is the development version of EnrichmentBrowser; for the stable release version, see EnrichmentBrowser.

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

Bioconductor version: Development (3.18)

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 [aut, cre], Gergely Csaba [aut], Mara Santarelli [ctb], Mirko Signorelli [ctb], Rohit Satyam [ctb], Marcel Ramos [ctb], Levi Waldron [ctb], Ralf Zimmer [aut]

Maintainer: Ludwig Geistlinger <ludwig.geistlinger at gmail.com>

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


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HTML R Script Seamless navigation through combined results of set- & network-based enrichment analysis
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biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, ImmunoOncology, Microarray, Network, NetworkEnrichment, Pathways, RNASeq, ReportWriting, Software, Visualization
Version 2.31.5
In Bioconductor since BioC 3.0 (R-3.1) (9 years)
License Artistic-2.0
Depends SummarizedExperiment, graph
Imports AnnotationDbi, BiocFileCache, BiocManager, GSEABase, GO.db, KEGGREST, KEGGgraph, Rgraphviz, S4Vectors, SPIA, edgeR, graphite, hwriter, limma, methods, pathview, safe
Suggests ALL, BiocStyle, ComplexHeatmap, DESeq2, ReportingTools, airway, biocGraph, hgu95av2.db, geneplotter, knitr, msigdbr, rmarkdown, statmod
BugReports https://github.com/lgeistlinger/EnrichmentBrowser/issues
Depends On Me
Imports Me GSEABenchmarkeR, zenith
Suggests Me GenomicSuperSignature, roastgsa
Links To Me
Build Report  

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Source Package EnrichmentBrowser_2.31.5.tar.gz
Windows Binary EnrichmentBrowser_2.31.5.zip
macOS Binary (x86_64) EnrichmentBrowser_2.31.5.tgz
macOS Binary (arm64) EnrichmentBrowser_2.31.5.tgz
Source Repository git clone https://git.bioconductor.org/packages/EnrichmentBrowser
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/EnrichmentBrowser
Bioc Package Browser https://code.bioconductor.org/browse/EnrichmentBrowser/
Package Short Url https://bioconductor.org/packages/EnrichmentBrowser/
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