Different p-values are produced for each gene set using a different statistical procedure and a randomization distribution. The p-values obtained are used to test the self-contained hypothesis of gene set diffferential expression

doIt(pval, oneRealization = FALSE, aggr = NULL, correction = "BH",
  gsc, foutput = "output")

Arguments

pval

List where each element contains the p-values for each test and randomization distribution

oneRealization

One single sample to be used?

aggr

Function to aggregate the p-values (as proposed in metap)

correction

Function to adjust the p-values of the meta-analysis of p-values (single = FALSE) or the raw p-values (single = TRUE)

gsc

Gene set collection

foutput

Output file