adjacency.matrix        An adjacency matrix of a random graph
as.adjacencyList        Uses a adjacency matrix to create a adjacency
                        list
calc.diffusionKernel    Calculation of diffusion kernel matrix
crossval                Performs cross-validation with a specified
                        algorithm
desummarize.ranks       Desummarize GeneRanks back to the corresponding
                        probesets
extractFeatures         Extracts features which have been choosen by
                        the classifier(s).
fit.graph.svm           Implementation of a supervised classification
                        framework introduced by Franck Rapaport et al.,
                        2007.
fit.networkBasedSVM     Implementation of the network-based Support
                        Vector Machine introduced by Yanni Zhu et al.,
                        2009.
fit.rfe                 Recursive Feature Elimination (RFE)
fit.rrfe                Reweighted Recursive Feature Elimination (RRFE)
getGeneRanks            Calculate GeneRanks as used by RRFE
mapping                 A mapping of Refseq Protein IDs to probe set
                        IDs for the gene expression data
matchMatrices           Matches the expression data to the adjacency
                        matrix using the provided mapping.
pathClass-package       Classification with SMVs and prior knowledge
plot.pathClassResult    Prints the result of one or more
                        cross-validation run(s)
predict.graphSVM        Predict Method for Graph-SVM Fits
predict.networkBasedSVM
                        Predict Method for Network-based SVM Fits
predict.rfe             Predict Method for RFE Fits
predict.rrfe            Predict Method for RRFE Fits
read.hprd               Parse the HPRD flat file
summarizeProbes         Summarize probe sets
x                       Example gene expression data
y                       Example class labels for the gene expression
                        data
