- r -

• RandomFunctionNetworkBasedEnrichmentAlgorithm() : RandomFunctionNetworkBasedEnrichmentAlgorithm
• randomise() : Point_d< NT > , MyGraph , MyPointSet
• randomiseErdosRenyiSubgraph() : MyGraph
• randomiseVectorOfEdges() : MyGraph
• RandomUniverseNetworkBasedEnrichmentAlgorithm() : RandomUniverseNetworkBasedEnrichmentAlgorithm
• read() : MyAnnotations , MyGraph , MyHistogram , ActiveNetwork , SetOfActiveNetworks , GeneOntology , MyAnnotations
• read2() : MyGraph
• readDetailedCVResults() : Reporter
• readEdgeAnnotations() : NetMan
• readEdges() : SetOfActiveNetworks , Graphwhiz::Geewhiz
• readEdgeTypeDefinitions() : Graphwhiz::Geewhiz
• readEnrichment() : EnrichmentPostprocess
• readEvidenceCodeWeights() : GOEvidenceCodes , MyAnnotations
• readFile() : Apriori
• readGeneUniverse() : Reporter
• readGO() : MyAnnotations
• readMappingFromNetworkLegosToActiveNetworks() : SetOfNetworkLegos , SetOfActiveNetworks
• readNodeAliases() : NetMan
• readNodeAnnotations() : NetMan
• readNodeEnrichedFunctions() : SetOfActiveNetworks
• readNodeEnrichments() : SetOfActiveNetworks
• readNodeInfo() : Graphwhiz::Geewhiz
• readNodes() : SetOfActiveNetworks
• readNodeTypeDefinitions() : Graphwhiz::Geewhiz
• readNodeTypes() : MyGraph
• readParameters() : Graphwhiz::Geewhiz
• readPredictions() : Reporter
• readProbeAliases() : motifDataset , readfile
• readProbeInfo() : motifDataset , readfile
• readTerms() : GeneOntology
• reason() : EnrichmentRecord< S, T >
• redoBias() : MyOneVersusAllGeneManiaGainAlgo
• reduce2() : MyGainGraph
• removeBack() : Itemset
• removeFront() : Itemset
• removeUnresponsiveGenes() : NetMan
• reset() : Rotor
• resizeDigits() : Rotor
• resizeValues() : Rotor
• reverse() : MyGraphNodeInsertion , MyGraphNodeDeletion , MyGraphEdgeDeletion , MyAbstractGraphModification , MyGraphEdgeInsertion
• rewind() : TruthMatrix , BinaryMatrix
• rotate() : Rotor
• Rotor() : Rotor
• run() : MyOneVersusAllHopfieldGainAlgo , MyOneVersusAllAbstractSVMGainAlgo , MyOneVersusAllGainAlgo , MyOneVersusNoneFunctionalFlowGainAlgo , MyOneVersusAllLocalGainAlgo , MyOneVersusAllSinkSourceGainAlgo , MyOneVersusNoneLocalGainAlgo , MyOneVersusAllGeneManiaGainAlgo , MySimulatedAnnealer< AnnealState > , AbstractSingleReconciliation , MyOneVersusAllMincutGainAlgo
• runAnyOneVersusNoneAlgorithm() : MyGainParams
• runOneVersusAllAlgorithm() : MyGainParams
• runOneVersusNoneAlgorithm() : MyGainParams