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

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Documentation for package ‘EnrichmentBrowser’ version 2.4.6

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comb.ea.results Combining enrichment analysis results
compile.grn.from.kegg Compilation of a gene regulatory network from KEGG pathways
config.ebrowser Configuring the EnrichmentBrowser
de.ana Differential expression analysis between two sample groups
download.kegg.pathways Download of KEGG pathways for a particular organism
ea.browse Exploration of enrichment analysis results
ebrowser Seamless navigation through enrichment analysis results
exprs.heatmap Visualization of gene expression
get.go.genesets Definition of gene sets according to the Gene Ontology (GO)
get.kegg.genesets Definition of gene sets according to KEGG pathways for a specified organism
ggea Network-based enrichment analysis (NBEA)
ggea.graph GGEA graphs of consistency between regulation and expression
ggea.graph.legend GGEA graphs of consistency between regulation and expression
gs.ranking Exploration of enrichment analysis results
gsea Set-based enrichment analysis (SBEA)
id.types Mapping between gene ID types for feature names of an expression set
make.example.data Example data for the EnrichmentBrowser package
map.ids Mapping between gene ID types for feature names of an expression set
nbea Network-based enrichment analysis (NBEA)
nbea.methods Network-based enrichment analysis (NBEA)
normalize Normalization of microarray and RNA-seq expression data
ora Set-based enrichment analysis (SBEA)
parse.genesets.from.GMT Definition of gene sets according to KEGG pathways for a specified organism
pdistr Visualization of gene expression
probe.2.gene.eset Transformation of probe level expression to gene level expression
read.eset Reading gene expression data from file into an expression set
sbea Set-based enrichment analysis (SBEA)
sbea.methods Set-based enrichment analysis (SBEA)
volcano Visualization of gene expression