test {applera}R Documentation

An applera object containing 3 ctrl mouse arrays and three trt mouse arrays

Description

This dataset is used to test the functionalities of the applera package

Usage

data(test)

Format

An appleraSet object

Source

Raffaele A. Calogero lab. <raffaele.calogero@unito.it>

References

Examples

    data(test)
    #brief description of the appleraSet 
    test
    #available slots
    slotNames(test)
    #accessing to the Organism
    organism(test)
    #accessing to the Geneid
    #geneid(test)
    #accessing to the Signal values
   # exprs(signal(test)[1:2,])
    #phenoData associated to the Signal slot
   # pData(signal(test))
    #histograms of the slots of appleraSet
   # hist(test)
    #boxplot of the slots of appleraSet
   # boxplot(test)
    #mva.pairs plot of the wk15
   # samples<-sampleNames(signal(test))[which(signal(test)$wk==15)]
   # mvaAp(subExp(test, samples))
    #subsetting genes by geneNames
   # tmp<-geneNames(signal(test))[1:5]
   # tmp.1<-subGenes(test, tmp)
    #performing loess normalization for the appleraSet
   # test.norm<-normLoess(test)
    #Filtering by signal/noise, keep genes where at least 50
   # sn.subset <- apFilter(test, 0.5, 3, "sn")
    #Filtering by signal/noise, keep genes where at least 50
   # flags.subset <- apFilter(test, 0.5, 2, "flags")
    #Filtering by IQR, 
   # iqr.sn.subset<-iqrFilter(sn.subset, 0.25)    

[Package applera version 1.4.0 Index]