# Enrichment Analysis Using Multiple Ontologies and False Discovery Rate

## Documentation for package ‘mulea’ version 1.1.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

filter_ontology | Filter Ontology
gsea | Gene Set Enrichment Analysis (GSEA)
gsea-class | Gene Set Enrichment Analysis (GSEA)
list_to_gmt | Convert a list to ontology (GMT) 'data.frame'.
MuleaHypergeometricTest | PRIVATE class : An S4 class to represent a Hypergeometric tests in mulea.
MuleaHypergeometricTest-class | PRIVATE class : An S4 class to represent a Hypergeometric tests in mulea.
ora | An S4 class to represent a set based tests in mulea.
ora-class | An S4 class to represent a set based tests in mulea.
plot_barplot | Plot Barplot
plot_graph | Plot Graph (Network)
plot_heatmap | Plot Heatmap
plot_lollipop | Plot Lollipop
read_gmt | Read GMT File
reshape_results | Reshape Results
run_test | Run enrichment analysis procedure
run_test-method | PRIVATE class : An S4 class to represent a Hypergeometric tests in mulea.
run_test-method | PRIVATE class : An S4 class to represent a Hypergeometric tests in mulea.
run_test-method | PRIVATE class : An S4 class to represent a ranked based tests in mulea.
run_test-method | Gene Set Enrichment Analysis (GSEA)
run_test-method | Run enrichment analysis procedure
SetBasedEnrichmentTest | PRIVATE class : An S4 class to represent a Hypergeometric tests in mulea.
SetBasedEnrichmentTest-class | PRIVATE class : An S4 class to represent a Hypergeometric tests in mulea.
SubramanianTest | PRIVATE class : An S4 class to represent a ranked based tests in mulea.
SubramanianTest-class | PRIVATE class : An S4 class to represent a ranked based tests in mulea.
write_gmt | Write GMT file