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Wrapper function for Simple Over-Representation Analysis (ORA)

Run_simple_ORA.Rd

This function performs a simple over-representation analysis (ORA) on a given list of metabolites and background.

Usage

Run_simple_ORA(
  marker_list,
  background,
  custom_universe = NULL,
  alpha_cutoff = 0.05,
  min_intersection = 3
)

Arguments

marker_list

A vector or list of marker sets to analyze.

background

A list of named terms where each term is a character vector of metabolites.

custom_universe

An optional vector specifying a custom universe of terms. If not provided all metabolites in background will be used as universe.

alpha_cutoff

A numeric value indicating the alpha cutoff for significance.

min_intersection

An integer specifying the minimum intersection required between input list and a given term in background.

Value

A dataframe containing the ORA results for each group of markers.

Examples

if (FALSE) { # \dontrun{
data("example_ORA_markers")
bg = Load_background(mol_type = "Metabo",bg_type = "main_class",feature_type = "sf")
enrich_res = Run_simple_ORA(marker_list = example_ORA_markers,background = bg)
} # }