enrichmentTest: Fisher's exact test-based enrichment test
Description
Takes a vector of names representing phosphorylation sites that are partitioned in the same cluster
and an kinase-substrate annotation. Test for enrichment of the kinase based on the name vector.
Usage
enrichmentTest(clust, annotation, universe, alter = "greater")
Arguments
clust
a vector of names representing phosphorylation sites that are partitioned in the same cluster
annotation
a list with names correspond to kinases and elements correspond to substrates belong to each kinase
universe
the universe of names to compare against
alter
indicates the alternative hypothesis and must be one of "two.sided", "greater" or "less"
Value
a matrix that contains enrichment of each kinase based on the input name vector.
