GeNetClassifierReturn-class
                        Class "GeNetClassifierReturn"
GeneralizationError-class
                        Class "GeneralizationError" (slot of
                        GeNetClassifierReturn)
GenesNetwork-class      Class "GenesNetwork"
GenesRanking-class      Class "GenesRanking"
calculateGenesRanking   Calculate GenesRanking
externalValidation.probMatrix
                        Probability matrix.
externalValidation.stats
                        Statistics of the external validation.
gClasses-methods        Classes in the ranking.
geNetClassifier         Main function of the geNetClassifier package.
                        Trains the multi-class SVM classifier based on
                        the given gene expression data through
                        transparent detection of gene markers and their
                        associated networks.
geNetClassifier-package
                        classify diseases and build associated gene
                        networks using gene expression profiles
geneSymbols             Gene symbols associated to human Ensemble IDs.
genesDetails-methods    Details of the genes in the network.
getEdges-methods        Edges in the network.
getNodes-methods        Nodes in the network.
getNumEdges-methods     Number of edges in the network.
getNumNodes-methods     Number of nodes in the network.
getRanking-methods      Shows the genes ranking.
getSubNetwork-methods   Get a sub-network.
getTopRanking-methods   Gets a new ranking with the given top genes.
leukemiasClassifier     Sample leukemias classifier
network2txt             network2txt
numGenes-methods        Number of genes in the genesRanking.
numSignificantGenes-methods
                        Number of ranked genes over the posterior
                        probability threshold.
overview-methods        Overview
plot.GeNetClassifierReturn
                        Plot GeNetClassifierReturn
plot.GenesRanking       Plot GenesRanking
plotAssignments         Plot assignment probabilities
plotDiscriminantPower   Plots the genes' Discriminant Power.
plotExpressionProfiles
                        Expression profiles plot.
plotNetwork             Plot GenesNetwork
queryGeNetClassifier    Queries the classifier trained with
                        geNetClassifier.
querySummary            Summary of the query.
setProperties-methods   Set properties
