A B C D E F G H I K L M O P R S T U V W _

R

randomScores - Variable in class main_scripts.DCGraphsCalculator

randomScores - Variable in class main_scripts.DICER_main

readGeneSets(String, HashSet<String>) - Static method in class scripts.HyperGeometricEnrichmentAnalysis

readGeneSets(String, Collection<String>) - Static method in class scripts.HyperGeometricEnrichmentAnalysis

readMatrix(String) - Static method in class main_scripts.DICER_main

readMatrix(String) - Static method in class scripts.GetMaximumValueInSimMatrix

readStatisticalMatrices(String) - Method in class main_scripts.DICER_main

realTscoresGraph - Variable in class main_scripts.DCGraphsCalculator

realTscoresGraph - Variable in class main_scripts.DICER_main

RegParamsEM - Class in EM_LLR_Utils

RegParamsEM(SimilarityMatrix<String>, double[]) - Constructor for class EM_LLR_Utils.RegParamsEM

RegParamsEM(SimilarityMatrix<String>, double[], int) - Constructor for class EM_LLR_Utils.RegParamsEM

removeCurrentListFromGraph(Hashtable<Integer, HashSet<Integer>>, HashSet<Integer>) - Static method in class graph_algorithms.MetaModuleFinder

removeGenes(LinkedList<Integer>) - Method in class math_utils.ExpressionMatrix

removeIntersection(HashSet<Integer>, HashSet<Integer>) - Static method in class graph_algorithms.MetaModuleFinder

removeZeroDegreesMetaNodes() - Method in class graph_algorithms.MetaModuleFinder

robustPearson(float[], float[], int, int) - Static method in class math_utils.staticMathHelperMethods

run(ProgressManager) - Method in class EM_LLR_Utils.RegParamsEM

runAlgo(boolean, boolean) - Method in class main_scripts.DICER_main

This method runs the algorithm and keeps all statistical and clustering results in the fitting modules.

runEM() - Method in class EM_LLR_Utils.LLRScoresCalculator