betaStat-methods: ~~ Methods for Function 'betaStat' ~~

In npGSEA: Permutation approximation methods for gene set enrichment analysis (non-permutation GSEA)

Description

This function returns the corresponding beta statistic which is compared to the reference beta distribution for the npGSEA analysis in the gene set in the given experiment.

Usage

    betaStat(object)

Arguments

object

An object of type npGSEAResultBeta or npGSEAResultBetaCollection

Methods

signature(object = "npGSEAResultBeta")

Returns the beta-statistic for a npGSEAResultBeta object

signature(object = "npGSEAResultBetaCollection")

Returns a list of the beta-statistics for a npGSEAResultBetaCollection objects (1 for each set)

Author(s)

Jessica L. Larson

See Also

npGSEAResultBeta-class

Examples

    set.seed(15)
    yFactor <- as.factor( c(rep("treated", 5), rep("control", 5)) )
    xData <- matrix(data=rnorm(length(letters)*10) ,nrow=length(letters), ncol=10)
    rownames(xData) <- letters
    geneSetABC15 <- GeneSet(geneIds=letters[1:15], setName="setABC15")
    res <- npGSEA(x = xData, y = yFactor, set = geneSetABC15, approx= "beta")  
    betaStat(res)

npGSEA documentation built on Nov. 8, 2020, 6:49 p.m.