hyperGTest
method. If it is a
GOHyperGParams object, being made, then with one of the GO ontologies
(BP, CC, MF) as the category. This function will construct the
parameter object from a GeneSetCollection object and if necessary will
also try to check to make sure that the object is based on a GO2ALL
mapping.
GSEAGOHyperGParams(name, geneSetCollection, geneIds, universeGeneIds, ontology, pvalueCutoff, conditional, testDirection, ...)
GSEAKEGGHyperGParams(name, geneSetCollection, geneIds, universeGeneIds, pvalueCutoff, testDirection, ...)
"ANY"
: A vector of
gene identifiers. Numeric and character vectors are probably the
only things that make sense. These are the gene ids for the
selected gene set."ANY"
: A
vector of gene ids in the same format as geneIds
defining a
subset of the gene ids on the chip that will be used as the
universe for the hypergeometric calculation. If this is
NULL
or has length zero, then all gene ids on the chip will
be used.HyperGResult-class
GOHyperGParams-class
hyperGTest