GENccEnrichResult-class: Class '"GENccEnrichResult"'

Description Objects from the Class Slots Extends Methods Author(s) See Also Examples

Description

Holds generic ccEnrich type results

Objects from the Class

Objects can be created by calls of the form new("GENccEnrichResult", ...).

Slots

.Data:

Object of class "list" The actual list containing the ccEnrichResults

categoryName:

Object of class "character"

ontology:

Object of class "character"

geneAnnMapping:

Object of class "namedList"

graphType:

Object of class "character"

names:

Object of class "character"

Extends

Class "namedList", directly. Class "list", by class "namedList", distance 2. Class "vector", by class "namedList", distance 3. Class "AssayData", by class "namedList", distance 3.

Methods

[

signature(x = "GENccEnrichResult", i = "ANY", j = "ANY"): Subsets the object to just those lists that are desired

categoryName

signature(object = "GENccEnrichResult"):

ccCompareGeneric

signature(gccResult = "GENccEnrichResult", ccOptions = "ccOptions"): ...

geneAnnMapping

signature(object = "GENccEnrichResult"): ...

graphType

signature(object = "GENccEnrichResult"): ...

graphType<-

signature(object = "GENccEnrichResult"): ...

ontology

signature(object = "GENccEnrichResult"): ...

Author(s)

Robert M Flight

See Also

ccCompareGeneric ccSigList

Examples

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data(ccData)
locA <- grep("A",gseaRes$Tissues)
locL <- grep("L",gseaRes$Tissues)
locM <- grep("M",gseaRes$Tissues)

A <- new("ccSigList",sigID=gseaRes$KEGGID[locA],categoryName="KEGG",annotation="org.Mm.eg")
L <- new("ccSigList",sigID=gseaRes$KEGGID[locL],categoryName="KEGG",annotation="org.Mm.eg")
M <- new("ccSigList",sigID=gseaRes$KEGGID[locM],categoryName="KEGG",annotation="org.Mm.eg")
ccEnrichCol <- list(A=A,L=L,M=M)
ccEnrichCol <- new("GENccEnrichResult", ccEnrichCol, categoryName="KEGG")

rmflight/categoryCompare documentation built on May 27, 2019, 9:30 a.m.