stamNet-class {stam}R Documentation

Classifier Net for StAM

Description

Objects of this class describe a network of classifiers as it is used by structured analysis of microarray data.

Objects from the Class

Objects can be created by calls of the form new("stamNet", chip, root, probes), or by a call to stam.net.

chip
the name of the chip for which the classifier net is generated.
root
the GO identifier of the node where the generation of the classifier net is started.
probes
a character vector holding the identifiers of the probesets in the order as they occur in the expression matrix

Slots

chip:
Object of class "character", the name of the chip for which the classifier net is generated.
root:
Object of class "character", the GO identifier of the node where the generation of the classifier net is started.
chippkg:
Object of class "character", information on the version of the meta data package for the chip
GOpkg:
Object of class "character", information on the version of the meata data package on the Gene Ontology
nodes:
Object of class "list", elements are of class stamINode or stamLeaf, one for each node in the classifier net.
leafs:
Object of class "numeric", indices of all leaf nodes in slot nodes
inodes:
Object of class "numeric", indices of all inner nodes in slot nodes
probes:
Object of class "environment", the corresponding index for each probeset in the expression matrices to be analyzed

Methods

print
signature(x = "stamNet"): print information on the classifier net
writeHTML
signature(x = "stamNet"): generate HTML information on the classifier net. However, using stam.writeHTML is recommended.

Author(s)

Claudio Lottaz

See Also

stam.net, stamLeaf-class, stamINode-class


[Package stam version 1.0.3 Index]