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Run fgsea using the recommended fgseaMultilevel method

Source: R/pathway_gsea.R
run_fgsea.Rd

Run fgsea using the recommended fgseaMultilevel method

Usage

run_fgsea(
  ranked_list,
  gene_sets,
  min_size = 5,
  max_size = 500,
  p_adjust_method = "BH"
)

Arguments

ranked_list

A named vector of ranking statistics. Names define the feature universe and must be non-empty and unique; values must be finite and contain at least two distinct statistics.

gene_sets

A list of pathway gene sets

min_size

An integer specifying the minimum gene set size

max_size

An integer specifying the maximum gene set size

p_adjust_method

P-value adjustment method applied to fgsea raw p-values.

Value

A data frame of fgsea results