EnrichmentBrowser
Seamless navigation through combined results of set-based and network-based enrichment analysis
Bioconductor version: 3.23 · Package version: 2.42.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EnrichmentBrowser") Details
| Maintainer | Ludwig Geistlinger <ludwig.geistlinger@gmail.com> |
| 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] |
| License | Artistic-2.0 |
| Bug Reports | https://github.com/lgeistlinger/EnrichmentBrowser/issues |
| Downloads rank | 830 |
| Source branch | RELEASE_3_23 |
| biocViews | DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, ImmunoOncology, Microarray, Network, NetworkEnrichment, Pathways, RNASeq, ReportWriting, Software, Visualization |
Documentation
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Dependencies
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
Reverse dependencies
Imports Me (2): GSEABenchmarkeR, zenith
Suggests Me (3): bugphyzz, GenomicSuperSignature, roastgsa