stamPrediction-class {stam}R Documentation

Results of Predictions by StAM

Description

Object of this class are returned by stam.predict and contain prediction results as they are computed by structured analysis of microarray data.

Objects from the Class

Objects can be created by calls of the form new("stamPrediction", fit, expr.mat, cls, testset), but using stam.predict is recommended.

Slots

chip:
Object of class "character", the name of the chip for which the classifier net is generated.
nodes:
Object of class "list", elements are of class stamINode or stamLeaf, one for each remaining node in the classifier net.
class.labels:
Object of class "character", one name for each class
best.delta:
Object of class "numeric", shrinkage level used for computing
cls:
Object of class "character", class names for each sample
probs:
Object of class "array", matrix of prediction probabilities [samples x classes x nodes]
predicts:
Object of class "character", overall prediction for each sample
testset:
Object of class "numeric", indeces of samples which belong to the test set. The other samples are assumed to be the traiing set.
node.results:
Object of class "list", performance, redundancy, sensitivity and specificity per node

Methods

image
signature(x = "stamPrediction"): molecular symptoms image, see image.stamPrediction for details
print
signature(x = "stamPrediction"): print information on prediction
writeHTML
signature(x = "stamPrediction"): generate HTML information on prediction, but using stam.writeHTML is recommended

Author(s)

Claudio Lottaz

See Also

stam.predict, image.stamPrediction, stam.writeHTML


[Package stam version 1.0.3 Index]