Over Representation Analysis

Usage

ora(
  wb = NULL,
  universe = NULL,
  gsl = NULL,
  p_adj_method = "fdr",
  description = NULL,
  wbd_min = 1,
  min_size = 5,
  max_size = 500,
  out_file_prefix = "ora_res",
  write.txt = FALSE
)

Arguments

wb: list of character vectors with hits (white balls)
universe: universe, character vector
gsl: named list of sets
p_adj_method: p value adjustment method, see p.adjust.methods
description: optional named vector with gene set description; names must be gene set identifiers
wbd_min: minimum number of white balls drawn
min_size: minimum gene set size
max_size: maximum gene set size
out_file_prefix: prefix for .xlsx and .txt output files
write.txt: TRUE/FALSE. Whether to write txt files