PCpheno (version 1.28.0)

categoryToEntrezBuilder: Return a list mapping multi-protein complexes IDs to YEAST ids

Description

Return a list mapping multi-protein complexes (category) IDs to the YEAST ids annotated at the category id.

Usage

"categoryToEntrezBuilder"(p)

Arguments

p

A subclass of HyperGParams-class

Value

A list mapping category IDs to YEAST identifiers.

Details

End users should not call this directly. This method gets called from hyperGTest. To add support for a new category, a new method for this generic must be defined. Its signature should match a subclass of HyperGParams-class appropriate for the new category.

See Also

hyperGTest CoHyperGParams-class

Examples

data(ScISIC)
data(essglist)
essential <- names(essglist)

params <- new("CoHyperGParams",
              geneIds=essential, 
              universeGeneIds=rownames(ScISIC),
              annotation="org.Sc.sgd.db",
              categoryName="ScISIC",
              pvalueCutoff=0.01,
              testDirection="over")

categoryToEntrezBuilder(params)[1:2]