plotEnrichmentBars: Barplot of Feature Set Enrichment Analysis results

In bioFAM/MOFA: Multi-Omics Factor Analysis (MOFA)

Description

Method to generate a barplot with the number of enriched feature sets per factor

Usage

plotEnrichmentBars(fsea.results, alpha = 0.05)

Arguments

fsea.results	output of runEnrichmentAnalysis function
alpha	FDR threshold for calling enriched feature sets. Default is 0.05

Value

a ggplot2 object

Examples

# Example on the CLL data
filepath <- system.file("extdata", "CLL_model.hdf5", package = "MOFAdata")
MOFAobject <- loadModel(filepath)

# perform Enrichment Analysis on mRNA data using pre-build Reactome gene sets
data("reactomeGS", package = "MOFAdata")
fsea.results <- runEnrichmentAnalysis(MOFAobject, view="mRNA", feature.sets=reactomeGS)

# Plot overview of number of enriched pathways per factor at an FDR of 1%
plotEnrichmentBars(fsea.results, alpha=0.01)

bioFAM/MOFA documentation built on Oct. 3, 2020, 12:53 a.m.