| dksSelectGenes {dualKS} | R Documentation |
The DKSGeneScores returned by dksTrain holds
the rank data for all the genes in the original ExpressioSet.
However, generally only the top n genes for each class are desired
for classification. Rather than needing to re-run dksTrain
every time a signature of different size (n) is desired, you
simply extract that top n genes from this object using dksSelectGenes.
dksSelectGenes(data, n)
data |
An object of class DKSGeneScores, typically generated
by dksTrain |
n |
The number of genes, per class, to include in the classification signature. |
An object of class DKSGeneScores
Eric J. Kort, Yarong Yang
dksTrain, dksSelectGenes,
dksClassify, DKSGeneScores, DKSPredicted,
DKSClassifier
data("dks")
tr <- dksTrain(eset, 1, "up")
cl <- dksSelectGenes(tr, 100)
pr <- dksClassify(eset, cl)
summary(pr, pData(eset)[,1])
show(pr)
plot(pr, actual=pData(eset)[,1])