Description Objects from the Class Slots Extends Methods Author(s) See Also Examples
Holds multiple classes of ccEnrichResult
in one object to allow ccCompare
to work on only the one object and generate all of the results of a comparison.
Objects can be created by calls of the form new("ccEnrichCollection", ...)
.
.Data
:Object of class "list"
names
:Object of class "character"
The names (generally GO ontologies or KEGG, but can be changed) of each set of results
Class "namedList"
, directly.
Class "list"
, by class "namedList", distance 2.
Class "vector"
, by class "namedList", distance 3.
Class "AssayData"
, by class "namedList", distance 3.
signature(r = "ccEnrichCollection")
: Changes the pvalueCutoff
to be used to decide significant annotations for all of the contained ccEnrichResult
objects
signature(object = "ccEnrichCollection")
: Changes whether to use p-values
or fdr
values to determine those annotations that are significant in all of the contained ccEnrichResult
objects
signature(object = "ccEnrichCollection")
: how many features have to be annotated to a term to be reported as significant
signature(object = "ccEnrichCollection")
: Gets the type of graph that should be output for this collection
Robert M Flight
ccEnrich
hyperGTestCC
ccCompare
ccEnrichResult
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