Integrated pathway enrichment with multiGSEA

Integrated pathway enrichment with multiGSEA

integrated_enrichment_mutliGSEA(
  integration = "pvalue",
  DE_comparison_dataframe = NULL,
  weights = NULL,
  databases = "reactome",
  additional_database_gmt = FALSE
)

Arguments

integration

Options are pvalue padj weights

DE_comparison_dataframe

if integration == pvalue or padj, provide the differential expression comparison dataframe generated with single_omic_comparisons()

weights

if integration == weights, provide weights dataframe generated with extract_weights()

databases

Options are: all kegg panther pathbank pharmgkb reactome smpdb wikipathways or a combination thereof. Use NULL for GMT file only

additional_database_gmt

provide GMT file path

Value

List of results

See also

Other Enrichment analysis: GSEA(), cell_type_enrichment(), enrichment_custom(), pathway_analysis_enrichr()