HyperGResultCC-class: Class "HyperGResultCC"

In categoryCompare: Meta-analysis of high-throughput experiments using feature annotations

Description

Contains the results of performing a hypergeometric test on a HyperGParams object.

Objects from the Class

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

Slots

fdr:

Object of class "numeric" The number of FDR runs performed

fdrvalues:

Object of class "numeric" The FDR values generated

pvalueType:

Object of class "character" Whether to use p-values or FDR values in determing the significant terms returned

data:

Object of class "data.frame" Extra data

pvalues:

Object of class "numeric" P-values calculated for each term

oddsRatios:

Object of class "numeric"

expectedCounts:

Object of class "numeric"

catToGeneId:

Object of class "list"

organism:

Object of class "character"

annotation:

Object of class "character"

geneIds:

Object of class "ANY"

testName:

Object of class "character"

pvalueCutoff:

Object of class "numeric"

testDirection:

Object of class "character"

Extends

Class "HyperGResult", directly. Class "HyperGResultBase", by class "HyperGResult", distance 2.

Methods

fdr

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

fdrvalues

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

pCC

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

pvalueCutoff<-

signature(r = "HyperGResultCC"): ...

pvalueType

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

pvalueType<-

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

minCount

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

minCount<-

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

Author(s)

Robert M Flight

See Also

hyperGTestCC

Examples

showClass("HyperGResultCC")

categoryCompare documentation built on Nov. 8, 2020, 5:59 p.m.