Determine which pathways are found to be significant using each column individually
columnSignificance(scores, gmt, background, cutoff, significant,
correction.method, pvals)A numerical matrix of p-values where each row is a gene and each column is a test. Rownames should be the genes and colnames the names of the tests. All values must be 0<=p<=1 with missing values removed or converted to 1
A GMT object to be used for enrichment analysis. If a filename, a GMT object will be read from the file
A character vector of gene names to be used as a
statistical background. By default, the background is all genes that appear
in gmt
A maximum p-value for a gene to be used for enrichment analysis.
Any genes with adjusted.p.val > significant will be discarded before testing
A number in [0,1] denoting the maximum p-value for a pathway to be considered significantly enriched.
Method to correct p-values. See
p.adjust for details
p-value for the pathways calculated by ActivePathways
a data.table with columns 'term.id' and a column for each column
in scores, indicating whether each pathway was found to be
significant(TRUE) or not(FALSE) when considering only that column