This function plots the reference distribution and the
corresponding scaled statistic (Z, Beta, or Chi-sq) from the npGSEA analysis
for a given
This method is applicable for all three approximation methods.
An object of type
signature(object = "npGSEAResultNorm")
Plots the Z-statistic for a
npGSEAResultNorm object and the standard normal distribution
signature(object = "npGSEAResultBeta")
Plots the beta statistic
npGSEAResultBeta object and the corresponding reference beta
distribution (with alpha and beta calculated from
signature(object = "npGSEAResultChiSq")
Plots the beta
statistic for a
npGSEAResultChiSq object and the corresponding reference
chi-squared distribution (with degrees of freedom calculated from
Jessica L. Larson
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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) ##npGSEAPlot (res)
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