getGenomeSize: Accessors for the "genome.size" slot of the GeneOverlap class

Description Usage Arguments Details Value See Also Examples

Description

The genome.size slot contains the number of genes in the genome as an integer.

Usage

1
2
3
4
## S4 method for signature 'GeneOverlap'
getGenomeSize(object)
## S4 replacement method for signature 'GeneOverlap'
setGenomeSize(object) <- value

Arguments

object

A GeneOverlap object.

value

An integer representing genomic background.

Details

After setGenomeSize function is called, the tested Boolean label will be reset to false.

Value

An integer representing the genome size.

See Also

GeneOverlap-class

Examples

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
11
data(GeneOverlap)
go.obj <- newGeneOverlap(hESC.ChIPSeq.list$H3K27me3, 
                         hESC.RNASeq.list$"Exp Medium", 
                         genome.size=gs.RNASeq)
getGenomeSize(go.obj)
v.gs <- c(12e3, 14e3, 16e3, 18e3, 20e3)
setNames(sapply(v.gs, function(g) {
    setGenomeSize(go.obj) <- g
    go.obj <- testGeneOverlap(go.obj)
    getPval(go.obj)
}), v.gs)

shenlab-sinai/geneoverlap-old documentation built on May 26, 2017, 8:06 a.m.