| test {applera} | R Documentation |
This dataset is used to test the functionalities of the applera package
data(test)
An appleraSet object
Raffaele A. Calogero lab. <raffaele.calogero@unito.it>
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)