Assembles a matrix of nominal or adjusted pvalues from a sparrow::seas result

You might want a matrix of pvalues (or FDRs) for the gene sets across all GSEA methods you tried. I think I did, once, so here it is.

p.matrix(
  x,
  names = resultNames(x),
  pcol = c("padj", "padj.by.collection", "pval")
)

Arguments

x: A SparrowResult() object.
names: the entries from resultNames(x) that you want to include in the matrix. By default we take all of them.
pcol: The name of the column in logFC(x) where the type of pvalues are that we are collection. Pick on of "padj", "padj.by.collection", or "pval"

A matrix of the desired pvalues for all genesets

mg <- exampleSparrowResult()
pm <- p.matrix(mg)