plotErrorsRepeatedOneLayerCV: plotErrorsRepeatedOneLayerCV Method to plot the estimated...
In Rmagpie: MicroArray Gene-expression-based Program In Error rate estimation

Description Methods See Also Examples

This method creates a plot that represent the summary estimated error rate and the cross-validated error rate in each repeat of the one-layer cross-validation of the assessment at stake. The plot represents the summary estimate of the error rate (averaged over the repeats) and the cross-validated error rate obtained in each repeat versus the size of gene subsets (for SVM-RFE) or the threshold values (for NSC).

object = "assessment": The method is only applicable on objects of class assessment.

plotErrorsFoldTwoLayerCV-methods, plotErrorsSummaryOneLayerCV-methods

data('vV70genesDataset')

expeOfInterest <- new("assessment", dataset=vV70genes,
                                   noFolds1stLayer=3,
                                   noFolds2ndLayer=2,
                                   classifierName="svm",
                                   typeFoldCreation="original",
                                   svmKernel="linear",
                                   noOfRepeat=10,
                                   featureSelectionOptions=new("geneSubsets", optionValues=c(1,2,3,4,5,6)))

expeOfInterest <- runOneLayerExtCV(expeOfInterest)

plotErrorsRepeatedOneLayerCV(expeOfInterest)