Files in bd2kccd/r-causal
R-Causal Library

DESCRIPTION
INDEX
NAMESPACE
R/bayesEst.R R/ccd.R R/dm.R R/lofs.R R/onLoad.R R/randomDag.R R/tetrad_utils.R R/tetradrunner.R README.md
data/9var/sub001.cent-table.9.dat.txt
data/9var/sub004.cent-table.9.dat.txt
data/9var/sub005.cent-table.9.dat.txt
data/9var/sub009.cent-table.9.dat.txt
data/9var/sub010.cent-table.9.dat.txt
data/9var/sub013.cent-table.9.dat.txt
data/9var/sub014.cent-table.9.dat.txt
data/9var/sub016.cent-table.9.dat.txt
data/9var/sub017.cent-table.9.dat.txt
data/audiology.txt
data/charity.txt
data/sim_discrete_data_20vars_100cases.txt
inst/extdata/9var/sub001.cent-table.9.dat.txt
inst/extdata/9var/sub004.cent-table.9.dat.txt
inst/extdata/9var/sub005.cent-table.9.dat.txt
inst/extdata/9var/sub009.cent-table.9.dat.txt
inst/extdata/9var/sub010.cent-table.9.dat.txt
inst/extdata/9var/sub013.cent-table.9.dat.txt
inst/extdata/9var/sub014.cent-table.9.dat.txt
inst/extdata/9var/sub016.cent-table.9.dat.txt
inst/extdata/9var/sub017.cent-table.9.dat.txt
inst/extdata/audiology.txt
inst/extdata/charity.txt
inst/java/data-reader-0.2.3-SNAPSHOT.jar
inst/java/tetrad-lib-6.5.0-SNAPSHOT-tetradcmd.jar
java/edu/cmu/tetrad/algcomparison/Comparison.java
java/edu/cmu/tetrad/algcomparison/algorithm/Algorithm.java
java/edu/cmu/tetrad/algcomparison/algorithm/Algorithms.java
java/edu/cmu/tetrad/algcomparison/algorithm/MultiDataSetAlgorithm.java
java/edu/cmu/tetrad/algcomparison/algorithm/bootstrap/BootstrapFges.java
java/edu/cmu/tetrad/algcomparison/algorithm/bootstrap/BootstrapGfci.java
java/edu/cmu/tetrad/algcomparison/algorithm/bootstrap/BootstrapRfci.java
java/edu/cmu/tetrad/algcomparison/algorithm/cluster/Bpc.java
java/edu/cmu/tetrad/algcomparison/algorithm/cluster/ClusterAlgorithm.java
java/edu/cmu/tetrad/algcomparison/algorithm/cluster/Fofc.java
java/edu/cmu/tetrad/algcomparison/algorithm/cluster/Ftfc.java
java/edu/cmu/tetrad/algcomparison/algorithm/continuous/dag/Lingam.java
java/edu/cmu/tetrad/algcomparison/algorithm/mixed/Mgm.java
java/edu/cmu/tetrad/algcomparison/algorithm/mixed/pattern/MixedFgesDiscretingContinuousVariables.java
java/edu/cmu/tetrad/algcomparison/algorithm/mixed/pattern/MixedFgesTreatingDiscreteAsContinuous.java
java/edu/cmu/tetrad/algcomparison/algorithm/multi/CcdMaxConcatenated.java
java/edu/cmu/tetrad/algcomparison/algorithm/multi/FangConcatenated.java
java/edu/cmu/tetrad/algcomparison/algorithm/multi/ImagesBDeu.java
java/edu/cmu/tetrad/algcomparison/algorithm/multi/ImagesCcd.java
java/edu/cmu/tetrad/algcomparison/algorithm/multi/ImagesPcMax.java
java/edu/cmu/tetrad/algcomparison/algorithm/multi/ImagesSemBic.java
java/edu/cmu/tetrad/algcomparison/algorithm/multi/TsImagesSemBic.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/Ccd.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/CcdMax.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/Cfci.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/Fang.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/Fci.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/Gfci.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/Rfci.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/TsFci.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/TsGfci.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pag/TsImages.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/Cpc.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/CpcStable.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/FAS.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/Fges.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/FgesMb.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/FgesMeasurement.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/Jcpc.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/MBFS.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/Pc.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/PcMax.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/PcStable.java
java/edu/cmu/tetrad/algcomparison/algorithm/oracle/pattern/SingleGraphAlg.java
java/edu/cmu/tetrad/algcomparison/algorithm/other/Glasso.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/EB.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/R1.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/R2.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/R3.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/R4.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/RSkew.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/RSkewE.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/Skew.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/SkewE.java
java/edu/cmu/tetrad/algcomparison/algorithm/pairwise/Tanh.java
java/edu/cmu/tetrad/algcomparison/examples/ExampleCompareFromFiles.java
java/edu/cmu/tetrad/algcomparison/examples/ExampleCompareSimulation.java
java/edu/cmu/tetrad/algcomparison/examples/ExampleCompareSimulationTimeSeries.java
java/edu/cmu/tetrad/algcomparison/examples/ExampleNonlinearSave.java
java/edu/cmu/tetrad/algcomparison/examples/ExampleSave.java
java/edu/cmu/tetrad/algcomparison/examples/RunConfig.java
java/edu/cmu/tetrad/algcomparison/graph/Cyclic.java
java/edu/cmu/tetrad/algcomparison/graph/RandomForward.java
java/edu/cmu/tetrad/algcomparison/graph/RandomGraph.java
java/edu/cmu/tetrad/algcomparison/graph/RandomSingleFactorMim.java
java/edu/cmu/tetrad/algcomparison/graph/RandomTwoFactorMim.java
java/edu/cmu/tetrad/algcomparison/graph/ScaleFree.java
java/edu/cmu/tetrad/algcomparison/graph/SingleGraph.java
java/edu/cmu/tetrad/algcomparison/independence/ChiSquare.java
java/edu/cmu/tetrad/algcomparison/independence/ConditionalCorrelation.java
java/edu/cmu/tetrad/algcomparison/independence/ConditionalGaussianLRT.java
java/edu/cmu/tetrad/algcomparison/independence/CorrelationT.java
java/edu/cmu/tetrad/algcomparison/independence/DSeparationTest.java
java/edu/cmu/tetrad/algcomparison/independence/DiscreteBicTest.java
java/edu/cmu/tetrad/algcomparison/independence/FisherZ.java
java/edu/cmu/tetrad/algcomparison/independence/GSquare.java
java/edu/cmu/tetrad/algcomparison/independence/IndependenceWrapper.java
java/edu/cmu/tetrad/algcomparison/independence/MultinomialLogisticRegressionWald.java
java/edu/cmu/tetrad/algcomparison/independence/SemBicTest.java
java/edu/cmu/tetrad/algcomparison/score/BdeuScore.java
java/edu/cmu/tetrad/algcomparison/score/ConditionalGaussianBicScore.java
java/edu/cmu/tetrad/algcomparison/score/DiscreteBicScore.java
java/edu/cmu/tetrad/algcomparison/score/DseparationScore.java
java/edu/cmu/tetrad/algcomparison/score/ScoreWrapper.java
java/edu/cmu/tetrad/algcomparison/score/SemBic2Score.java
java/edu/cmu/tetrad/algcomparison/score/SemBicScore.java
java/edu/cmu/tetrad/algcomparison/simulation/BayesNetSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/BooleanGlassSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/ConditionalGaussianSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/ConditionalGaussianSimulation2.java
java/edu/cmu/tetrad/algcomparison/simulation/GeneralSemSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/GeneralSemSimulationSpecial1.java
java/edu/cmu/tetrad/algcomparison/simulation/LeeHastieSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/LinearFisherModel.java
java/edu/cmu/tetrad/algcomparison/simulation/LinearSineSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/LoadContinuousDataAndGraphs.java
java/edu/cmu/tetrad/algcomparison/simulation/LoadContinuousDataAndSingleGraph.java
java/edu/cmu/tetrad/algcomparison/simulation/LoadContinuousDataSmithSim.java
java/edu/cmu/tetrad/algcomparison/simulation/LoadDataAndGraphs.java
java/edu/cmu/tetrad/algcomparison/simulation/LoadDataFromFileWithoutGraph.java
java/edu/cmu/tetrad/algcomparison/simulation/SemSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/SemThenDiscretize.java
java/edu/cmu/tetrad/algcomparison/simulation/Simulation.java
java/edu/cmu/tetrad/algcomparison/simulation/Simulations.java
java/edu/cmu/tetrad/algcomparison/simulation/StandardizedSemSimulation.java
java/edu/cmu/tetrad/algcomparison/simulation/TimeSeriesSemSimulation.java
java/edu/cmu/tetrad/algcomparison/statistic/AdjacencyPrecision.java
java/edu/cmu/tetrad/algcomparison/statistic/AdjacencyRecall.java
java/edu/cmu/tetrad/algcomparison/statistic/ArrowheadPrecision.java
java/edu/cmu/tetrad/algcomparison/statistic/ArrowheadRecall.java
java/edu/cmu/tetrad/algcomparison/statistic/ElapsedTime.java
java/edu/cmu/tetrad/algcomparison/statistic/F1Adj.java
java/edu/cmu/tetrad/algcomparison/statistic/F1Arrow.java
java/edu/cmu/tetrad/algcomparison/statistic/MathewsCorrAdj.java
java/edu/cmu/tetrad/algcomparison/statistic/MathewsCorrArrow.java
java/edu/cmu/tetrad/algcomparison/statistic/NodesInCyclesPrecision.java
java/edu/cmu/tetrad/algcomparison/statistic/NodesInCyclesRecall.java
java/edu/cmu/tetrad/algcomparison/statistic/NumberOfEdgesTrue.java
java/edu/cmu/tetrad/algcomparison/statistic/ParameterColumn.java
java/edu/cmu/tetrad/algcomparison/statistic/PercentAmbiguous.java
java/edu/cmu/tetrad/algcomparison/statistic/PercentBidirectedEdges.java
java/edu/cmu/tetrad/algcomparison/statistic/SHD.java
java/edu/cmu/tetrad/algcomparison/statistic/Statistic.java
java/edu/cmu/tetrad/algcomparison/statistic/Statistics.java
java/edu/cmu/tetrad/algcomparison/statistic/TwoCycleFalseNegative.java
java/edu/cmu/tetrad/algcomparison/statistic/TwoCycleFalsePositive.java
java/edu/cmu/tetrad/algcomparison/statistic/TwoCyclePrecision.java
java/edu/cmu/tetrad/algcomparison/statistic/TwoCycleRecall.java
java/edu/cmu/tetrad/algcomparison/statistic/TwoCycleTruePositive.java
java/edu/cmu/tetrad/algcomparison/statistic/utils/AdjacencyConfusion.java
java/edu/cmu/tetrad/algcomparison/statistic/utils/ArrowConfusion.java
java/edu/cmu/tetrad/algcomparison/statistic/utils/SimulationPath.java
java/edu/cmu/tetrad/algcomparison/utils/HasKnowledge.java
java/edu/cmu/tetrad/algcomparison/utils/HasParameterValues.java
java/edu/cmu/tetrad/algcomparison/utils/HasParameters.java
java/edu/cmu/tetrad/algcomparison/utils/ParameterValues.java
java/edu/cmu/tetrad/algcomparison/utils/TakesData.java
java/edu/cmu/tetrad/algcomparison/utils/TakesInitialGraph.java
java/edu/cmu/tetrad/bayes/ApproximateUpdater.java
java/edu/cmu/tetrad/bayes/BayesIm.java
java/edu/cmu/tetrad/bayes/BayesImDistanceFunction.java
java/edu/cmu/tetrad/bayes/BayesImProbs.java
java/edu/cmu/tetrad/bayes/BayesPm.java
java/edu/cmu/tetrad/bayes/BayesProperties.java
java/edu/cmu/tetrad/bayes/BayesUpdater.java
java/edu/cmu/tetrad/bayes/BayesUtils.java
java/edu/cmu/tetrad/bayes/BayesXmlParser.java
java/edu/cmu/tetrad/bayes/BayesXmlRenderer.java
java/edu/cmu/tetrad/bayes/BdeMetric.java
java/edu/cmu/tetrad/bayes/BdeMetricCache.java
java/edu/cmu/tetrad/bayes/CellTableProbs.java
java/edu/cmu/tetrad/bayes/CptInvariantMarginalCalculator.java
java/edu/cmu/tetrad/bayes/CptInvariantUpdater.java
java/edu/cmu/tetrad/bayes/DataSetProbs.java
java/edu/cmu/tetrad/bayes/DirichletBayesIm.java
java/edu/cmu/tetrad/bayes/DirichletDataSetProbs.java
java/edu/cmu/tetrad/bayes/DirichletEstimator.java
java/edu/cmu/tetrad/bayes/DiscreteProbs.java
java/edu/cmu/tetrad/bayes/EmBayesEstimator.java
java/edu/cmu/tetrad/bayes/EmBayesProperties.java
java/edu/cmu/tetrad/bayes/Evidence.java
java/edu/cmu/tetrad/bayes/ExtraCategoryInterpolator.java
java/edu/cmu/tetrad/bayes/FactoredBayesStructuralEM.java
java/edu/cmu/tetrad/bayes/Identifiability.java
java/edu/cmu/tetrad/bayes/IntAveDataSetProbs.java
java/edu/cmu/tetrad/bayes/IntMaxDataSetProbs.java
java/edu/cmu/tetrad/bayes/ManipulatingBayesUpdater.java
java/edu/cmu/tetrad/bayes/Manipulation.java
java/edu/cmu/tetrad/bayes/MlBayesEstimator.java
java/edu/cmu/tetrad/bayes/MlBayesIm.java
java/edu/cmu/tetrad/bayes/MlBayesImObs.java
java/edu/cmu/tetrad/bayes/ModeInterpolator.java
java/edu/cmu/tetrad/bayes/ModelGenerator.java
java/edu/cmu/tetrad/bayes/OnTheFlyMarginalCalculator.java
java/edu/cmu/tetrad/bayes/Proposition.java
java/edu/cmu/tetrad/bayes/QList.java
java/edu/cmu/tetrad/bayes/RowSummingExactUpdater.java
java/edu/cmu/tetrad/bayes/StoredCellProbs.java
java/edu/cmu/tetrad/bayes/StoredCellProbsObs.java
java/edu/cmu/tetrad/bayes/UpdatedBayesIm.java
java/edu/cmu/tetrad/calculator/Transformation.java
java/edu/cmu/tetrad/calculator/expression/AbstractExpression.java
java/edu/cmu/tetrad/calculator/expression/AbstractExpressionDescriptor.java
java/edu/cmu/tetrad/calculator/expression/ConstantExpression.java
java/edu/cmu/tetrad/calculator/expression/Context.java
java/edu/cmu/tetrad/calculator/expression/Equation.java
java/edu/cmu/tetrad/calculator/expression/EvaluationExpression.java
java/edu/cmu/tetrad/calculator/expression/Expression.java
java/edu/cmu/tetrad/calculator/expression/ExpressionDescriptor.java
java/edu/cmu/tetrad/calculator/expression/ExpressionInitializationException.java
java/edu/cmu/tetrad/calculator/expression/ExpressionManager.java
java/edu/cmu/tetrad/calculator/expression/ExpressionSignature.java
java/edu/cmu/tetrad/calculator/expression/ExpressionUtils.java
java/edu/cmu/tetrad/calculator/expression/VariableExpression.java
java/edu/cmu/tetrad/calculator/parser/ExpressionLexer.java
java/edu/cmu/tetrad/calculator/parser/ExpressionParser.java
java/edu/cmu/tetrad/calculator/parser/Token.java
java/edu/cmu/tetrad/cluster/ClusteringAlgorithm.java
java/edu/cmu/tetrad/cluster/KMeans.java
java/edu/cmu/tetrad/cluster/metrics/Dissimilarity.java
java/edu/cmu/tetrad/cluster/metrics/SquaredErrorLoss.java
java/edu/cmu/tetrad/cmd/TetradCmd.java
java/edu/cmu/tetrad/data/AbstractVariable.java
java/edu/cmu/tetrad/data/AndersonDarlingTest.java
java/edu/cmu/tetrad/data/BigDataSetUtility.java
java/edu/cmu/tetrad/data/BootstrapSampler.java
java/edu/cmu/tetrad/data/BoxDataSet.java
java/edu/cmu/tetrad/data/ByteDataBox.java
java/edu/cmu/tetrad/data/CaseExpander.java
java/edu/cmu/tetrad/data/CellTable.java
java/edu/cmu/tetrad/data/Clusters.java
java/edu/cmu/tetrad/data/ColtDataBox.java
java/edu/cmu/tetrad/data/ColtDataSet.java
java/edu/cmu/tetrad/data/ContinuousDiscretizationSpec.java
java/edu/cmu/tetrad/data/ContinuousVariable.java
java/edu/cmu/tetrad/data/CorrelationMatrix.java
java/edu/cmu/tetrad/data/CovarianceMatrix.java
java/edu/cmu/tetrad/data/CovarianceMatrixOnTheFly.java
java/edu/cmu/tetrad/data/DataBox.java
java/edu/cmu/tetrad/data/DataFilter.java
java/edu/cmu/tetrad/data/DataGraphUtils.java
java/edu/cmu/tetrad/data/DataModel.java
java/edu/cmu/tetrad/data/DataModelList.java
java/edu/cmu/tetrad/data/DataReader.java
java/edu/cmu/tetrad/data/DataSet.java
java/edu/cmu/tetrad/data/DataType.java
java/edu/cmu/tetrad/data/DataUtils.java
java/edu/cmu/tetrad/data/DataWriter.java
java/edu/cmu/tetrad/data/DelimiterType.java
java/edu/cmu/tetrad/data/DiscreteDiscretizationSpec.java
java/edu/cmu/tetrad/data/DiscreteVariable.java
java/edu/cmu/tetrad/data/DiscreteVariableType.java
java/edu/cmu/tetrad/data/DiscretizationSpec.java
java/edu/cmu/tetrad/data/Discretizer.java
java/edu/cmu/tetrad/data/DoubleDataBox.java
java/edu/cmu/tetrad/data/FloatDataBox.java
java/edu/cmu/tetrad/data/GeneralAndersonDarlingTest.java
java/edu/cmu/tetrad/data/Histogram.java
java/edu/cmu/tetrad/data/ICovarianceMatrix.java
java/edu/cmu/tetrad/data/IDataReader.java
java/edu/cmu/tetrad/data/IKnowledge.java
java/edu/cmu/tetrad/data/IndependenceFacts.java
java/edu/cmu/tetrad/data/IntDataBox.java
java/edu/cmu/tetrad/data/Knowledge.java
java/edu/cmu/tetrad/data/Knowledge2.java
java/edu/cmu/tetrad/data/KnowledgeBoxInput.java
java/edu/cmu/tetrad/data/KnowledgeEdge.java
java/edu/cmu/tetrad/data/KnowledgeGroup.java
java/edu/cmu/tetrad/data/KnowledgeTransferable.java
java/edu/cmu/tetrad/data/Lineizer.java
java/edu/cmu/tetrad/data/LogDataUtils.java
java/edu/cmu/tetrad/data/LongDataBox.java
java/edu/cmu/tetrad/data/MeanInterpolator.java
java/edu/cmu/tetrad/data/MixedDataBox.java
java/edu/cmu/tetrad/data/MultiGeneralAndersonDarlingTest.java
java/edu/cmu/tetrad/data/NumberObjectDataSet.java
java/edu/cmu/tetrad/data/RandomSampler.java
java/edu/cmu/tetrad/data/RegexTokenizer.java
java/edu/cmu/tetrad/data/ShortDataBox.java
java/edu/cmu/tetrad/data/ShortTriangularMatrix.java
java/edu/cmu/tetrad/data/Simulator.java
java/edu/cmu/tetrad/data/SplitCasesSpec.java
java/edu/cmu/tetrad/data/TimeSeriesData.java
java/edu/cmu/tetrad/data/TriangularMatrix.java
java/edu/cmu/tetrad/data/Variable.java
java/edu/cmu/tetrad/data/VariableSource.java
java/edu/cmu/tetrad/data/VerticalDoubleDataBox.java
java/edu/cmu/tetrad/data/VerticalIntDataBox.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/akutsu/BoolSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/akutsu/LTestBoolSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/akutsu/LTestQnet3.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/akutsu/LTestSsys1.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/akutsu/RevealOutputGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/Biolingua.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/BiolinguaDigraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/BiolinguaRunner.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/Digraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/LTester.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/cm.txt
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/correlMatrix.txt
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/g.txt
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/graph_gold.txt
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/graph_paperfig1.txt
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/ltm.txt
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/biolingua/m.txt
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/1c5g400tmeas.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate1chisq.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate1meas.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate1test.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate1thresh.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate2graph.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate2meas.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate2test.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate3chisq.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate3graph.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2rate3meas.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2ratemeas.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/2ratetest.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/5g400tmeas.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/data/testmutual.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/ideker/ItkPredictorSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/ideker/LTestPredictorSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/ideker/ReadControl.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/ideker/ReadIdeker.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/package.html
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/reveal/LTestRevealSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/reveal/RevealEvaluator.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/reveal/RevealOutputGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/reveal/RevealSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/reveal/TestRevealEvaluator.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/AbstractNbComponent.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/BoolSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/LTestBoolSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/LTestReveal.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/LTestRevealSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbComponent.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbFunction.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbFunctionAnd.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbFunctionOr.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbFunctionSV.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbFunctionSum.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbGene.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbGeneAnd.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NbGeneOr.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/NetBuilderModel.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/RevealEvaluator.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/RevealOutputGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/RevealSearch.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/SimulateNetwork.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/SimulateNetworkMain.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/matearly1011.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/tstbool2nb1011.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/urchin/tstbool2nb10115.dat
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/BasicGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/BasicLTMatrix.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/BasicMatrix.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/LTMatrix.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/LTMatrixF.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/Matrix.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/MatrixF.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/OutputGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/SymMatrix.java
java/edu/cmu/tetrad/gene/tetrad/gene/algorithm/util/SymMatrixF.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/ActiveLagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/DisplayNameHandler.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/LagGraphParams.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/ManualActiveLagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/ManualLagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/ManualLagGraphParams.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/RandomActiveLagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/StoredLagGraphParams.java
java/edu/cmu/tetrad/gene/tetrad/gene/graph/package.html
java/edu/cmu/tetrad/gene/tetrad/gene/history/BasalInitializer.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/BasicLagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/BooleanFunction.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/BooleanGlassFunction.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/DishModel.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/GeneHistory.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/GraphInitializer.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/GraphRandomizer.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/IndexedConnectivity.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/IndexedLagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/IndexedParent.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/Initializer.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/LagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/LaggedEdge.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/LaggedFactor.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/LinearFunction.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/Polynomial.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/PolynomialFunction.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/PolynomialTerm.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/PreviousStepOnly.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/RandomDistribution.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/SimpleRandomizer.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/TestBooleanFunction.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/TestIndexedConnectivity.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/TestIndexedLagGraph.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/TestPolynomial.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/TestPolynomialTerm.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/TestSimpleRandomizer.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/UpdateFunction.java
java/edu/cmu/tetrad/gene/tetrad/gene/history/package.html
java/edu/cmu/tetrad/gene/tetrad/gene/history/package2.html
java/edu/cmu/tetrad/gene/tetrad/gene/history/package3.html
java/edu/cmu/tetrad/gene/tetrad/gene/simexp/LinearSimExp1.java
java/edu/cmu/tetrad/gene/tetrad/gene/simexp/package.html
java/edu/cmu/tetrad/gene/tetrad/gene/simulation/MeasurementSimulator.java
java/edu/cmu/tetrad/gene/tetrad/gene/simulation/TestMeasurementSimulator.java
java/edu/cmu/tetrad/gene/tetrad/gene/simulation/package.html
java/edu/cmu/tetrad/gene/tetrad/gene/util/HandleyConvert.java
java/edu/cmu/tetrad/gene/tetrad/gene/util/package.html
java/edu/cmu/tetrad/gene/tetradapp/model/BooleanGlassGeneIm.java
java/edu/cmu/tetrad/gene/tetradapp/model/BooleanGlassGenePm.java
java/edu/cmu/tetrad/gene/tetradapp/model/GenePm.java
java/edu/cmu/tetrad/gene/tetradapp/model/MeasurementSimulatorParams.java
java/edu/cmu/tetrad/graph/AtMostOneEdgePerPair.java
java/edu/cmu/tetrad/graph/Dag.java
java/edu/cmu/tetrad/graph/DirectedEdgesOnly.java
java/edu/cmu/tetrad/graph/DirectedUndirectedOnly.java
java/edu/cmu/tetrad/graph/Edge.java
java/edu/cmu/tetrad/graph/EdgeListGraph.java
java/edu/cmu/tetrad/graph/EdgeListGraphSingleConnections.java
java/edu/cmu/tetrad/graph/EdgeTypeProbability.java
java/edu/cmu/tetrad/graph/Edges.java
java/edu/cmu/tetrad/graph/Endpoint.java
java/edu/cmu/tetrad/graph/EndpointMatrixGraph.java
java/edu/cmu/tetrad/graph/FruchtermanReingoldLayout.java
java/edu/cmu/tetrad/graph/Graph.java
java/edu/cmu/tetrad/graph/GraphConstraint.java
java/edu/cmu/tetrad/graph/GraphConverter.java
java/edu/cmu/tetrad/graph/GraphGeneratorRandomNumEdges.java
java/edu/cmu/tetrad/graph/GraphGroup.java
java/edu/cmu/tetrad/graph/GraphNode.java
java/edu/cmu/tetrad/graph/GraphUtils.java
java/edu/cmu/tetrad/graph/InArrowImpliesNonancestor.java
java/edu/cmu/tetrad/graph/IndependenceFact.java
java/edu/cmu/tetrad/graph/KamadaKawaiLayout.java
java/edu/cmu/tetrad/graph/LagGraph.java
java/edu/cmu/tetrad/graph/LayeredDrawing.java
java/edu/cmu/tetrad/graph/MeasuredLatentOnly.java
java/edu/cmu/tetrad/graph/MisclassificationUtils.java
java/edu/cmu/tetrad/graph/NoEdgesToSelf.java
java/edu/cmu/tetrad/graph/Node.java
java/edu/cmu/tetrad/graph/NodeEqualityMode.java
java/edu/cmu/tetrad/graph/NodePair.java
java/edu/cmu/tetrad/graph/NodeType.java
java/edu/cmu/tetrad/graph/OrderedPair.java
java/edu/cmu/tetrad/graph/SemGraph.java
java/edu/cmu/tetrad/graph/TimeLagGraph.java
java/edu/cmu/tetrad/graph/Triple.java
java/edu/cmu/tetrad/graph/TripleClassifier.java
java/edu/cmu/tetrad/graph/UniformGraphGenerator.java
java/edu/cmu/tetrad/io/AbstractContinuousDataReader.java
java/edu/cmu/tetrad/io/AbstractDataReader.java
java/edu/cmu/tetrad/io/AbstractDiscreteDataReader.java
java/edu/cmu/tetrad/io/DataReader.java
java/edu/cmu/tetrad/io/TabularContinuousDataReader.java
java/edu/cmu/tetrad/io/VerticalTabularDiscreteDataReader.java
java/edu/cmu/tetrad/latest/LatestClient.java
java/edu/cmu/tetrad/latest/SoftwareVersion.java
java/edu/cmu/tetrad/performance/Comparison.java
java/edu/cmu/tetrad/performance/Comparison2.java
java/edu/cmu/tetrad/performance/ComparisonParameters.java
java/edu/cmu/tetrad/performance/ComparisonResult.java
java/edu/cmu/tetrad/performance/ComparisonScript.java
java/edu/cmu/tetrad/performance/ExploreComparison.java
java/edu/cmu/tetrad/performance/PerformanceTests.java
java/edu/cmu/tetrad/performance/PerformanceTestsDan.java
java/edu/cmu/tetrad/performance/readme_ComparisonScript.txt
java/edu/cmu/tetrad/regression/LogisticRegression.java
java/edu/cmu/tetrad/regression/LogisticRegression2.java
java/edu/cmu/tetrad/regression/LogisticRegressionResult.java
java/edu/cmu/tetrad/regression/Regression.java
java/edu/cmu/tetrad/regression/RegressionCovariance.java
java/edu/cmu/tetrad/regression/RegressionDataset.java
java/edu/cmu/tetrad/regression/RegressionDatasetGeneralized.java
java/edu/cmu/tetrad/regression/RegressionInterpolator.java
java/edu/cmu/tetrad/regression/RegressionPlane.java
java/edu/cmu/tetrad/regression/RegressionResult.java
java/edu/cmu/tetrad/regression/RegressionUtils.java
java/edu/cmu/tetrad/search/AdLeafTree.java
java/edu/cmu/tetrad/search/AdTrees.java
java/edu/cmu/tetrad/search/BDeScore.java
java/edu/cmu/tetrad/search/BDeuScore.java
java/edu/cmu/tetrad/search/BayesUpdaterClassifier.java
java/edu/cmu/tetrad/search/BdeuScoreImages.java
java/edu/cmu/tetrad/search/Bff.java
java/edu/cmu/tetrad/search/BffBeam.java
java/edu/cmu/tetrad/search/BffGes.java
java/edu/cmu/tetrad/search/BicScore.java
java/edu/cmu/tetrad/search/BinaryFunction.java
java/edu/cmu/tetrad/search/BinaryFunctionUtils.java
java/edu/cmu/tetrad/search/BpcAlgorithmType.java
java/edu/cmu/tetrad/search/BpcTetradPurifyWashdown.java
java/edu/cmu/tetrad/search/BuildPureClusters.java
java/edu/cmu/tetrad/search/Ccd.java
java/edu/cmu/tetrad/search/CcdMax.java
java/edu/cmu/tetrad/search/Cci.java
java/edu/cmu/tetrad/search/Cefs.java
java/edu/cmu/tetrad/search/Cfci.java
java/edu/cmu/tetrad/search/ChiSquareTest.java
java/edu/cmu/tetrad/search/ClusterUtils.java
java/edu/cmu/tetrad/search/ConditionalGaussianLikelihood.java
java/edu/cmu/tetrad/search/ConditionalGaussianLikelihood2.java
java/edu/cmu/tetrad/search/ConditionalGaussianScore.java
java/edu/cmu/tetrad/search/ContinuousTetradTest.java
java/edu/cmu/tetrad/search/Cpc.java
java/edu/cmu/tetrad/search/CpcLocal.java
java/edu/cmu/tetrad/search/CpcOrienter.java
java/edu/cmu/tetrad/search/CpcStable.java
java/edu/cmu/tetrad/search/DMSearch.java
java/edu/cmu/tetrad/search/DagInPatternIterator.java
java/edu/cmu/tetrad/search/DagIterator.java
java/edu/cmu/tetrad/search/DagSepsets.java
java/edu/cmu/tetrad/search/DagToPag.java
java/edu/cmu/tetrad/search/DagToPag2.java
java/edu/cmu/tetrad/search/DagToPattern.java
java/edu/cmu/tetrad/search/Dci.java
java/edu/cmu/tetrad/search/DeltaSextadTest.java
java/edu/cmu/tetrad/search/DeltaTetradTest.java
java/edu/cmu/tetrad/search/DeltaTetradTest2.java
java/edu/cmu/tetrad/search/DirectedGraphIterator.java
java/edu/cmu/tetrad/search/DirichletScore.java
java/edu/cmu/tetrad/search/DiscreteClassifier.java
java/edu/cmu/tetrad/search/DiscreteTetradTest.java
java/edu/cmu/tetrad/search/EstimateRank.java
java/edu/cmu/tetrad/search/ExperimentalSetup.java
java/edu/cmu/tetrad/search/FactorAnalysis.java
java/edu/cmu/tetrad/search/Fang.java
java/edu/cmu/tetrad/search/Fas.java
java/edu/cmu/tetrad/search/FasDci.java
java/edu/cmu/tetrad/search/FasDeterministic.java
java/edu/cmu/tetrad/search/FasFdr.java
java/edu/cmu/tetrad/search/FasStable.java
java/edu/cmu/tetrad/search/FasStableConcurrent.java
java/edu/cmu/tetrad/search/FasStableConcurrentFdr.java
java/edu/cmu/tetrad/search/FastIca.java
java/edu/cmu/tetrad/search/Fasts.java
java/edu/cmu/tetrad/search/Fci.java
java/edu/cmu/tetrad/search/FciDsepLegalPairs.java
java/edu/cmu/tetrad/search/FciDsepLegalPairsCfci.java
java/edu/cmu/tetrad/search/FciMax.java
java/edu/cmu/tetrad/search/FciOrient.java
java/edu/cmu/tetrad/search/FciOrientT.java
java/edu/cmu/tetrad/search/Fges.java
java/edu/cmu/tetrad/search/FgesMb.java
java/edu/cmu/tetrad/search/FgesMb2.java
java/edu/cmu/tetrad/search/FgesOld.java
java/edu/cmu/tetrad/search/FgesOrienter.java
java/edu/cmu/tetrad/search/FindOneFactorClusters.java
java/edu/cmu/tetrad/search/FindTwoFactorClusters.java
java/edu/cmu/tetrad/search/GFci.java
java/edu/cmu/tetrad/search/GFciMax.java
java/edu/cmu/tetrad/search/GPc.java
java/edu/cmu/tetrad/search/GSquareTest.java
java/edu/cmu/tetrad/search/Glasso.java
java/edu/cmu/tetrad/search/GraphChange.java
java/edu/cmu/tetrad/search/GraphGroupSearch.java
java/edu/cmu/tetrad/search/GraphScore.java
java/edu/cmu/tetrad/search/GraphScorer.java
java/edu/cmu/tetrad/search/GraphSearch.java
java/edu/cmu/tetrad/search/GraphWithParameters.java
java/edu/cmu/tetrad/search/GrowShrink.java
java/edu/cmu/tetrad/search/GwpResult.java
java/edu/cmu/tetrad/search/Hungarian.java
java/edu/cmu/tetrad/search/IBDeuScore.java
java/edu/cmu/tetrad/search/IFas.java
java/edu/cmu/tetrad/search/IImages.java
java/edu/cmu/tetrad/search/IPurify.java
java/edu/cmu/tetrad/search/ISemBicScore.java
java/edu/cmu/tetrad/search/ImpliedOrientation.java
java/edu/cmu/tetrad/search/IndTestChiSquare.java
java/edu/cmu/tetrad/search/IndTestConditionalCorrelation.java
java/edu/cmu/tetrad/search/IndTestConditionalGaussianLRT.java
java/edu/cmu/tetrad/search/IndTestCorrelationT.java
java/edu/cmu/tetrad/search/IndTestCramerT.java
java/edu/cmu/tetrad/search/IndTestDSep.java
java/edu/cmu/tetrad/search/IndTestDSepDiminishingPathStrengths.java
java/edu/cmu/tetrad/search/IndTestDirichletScore.java
java/edu/cmu/tetrad/search/IndTestDrton.java
java/edu/cmu/tetrad/search/IndTestFisherZ.java
java/edu/cmu/tetrad/search/IndTestFisherZBootstrap.java
java/edu/cmu/tetrad/search/IndTestFisherZConcatenateResiduals.java
java/edu/cmu/tetrad/search/IndTestFisherZFisherPValue.java
java/edu/cmu/tetrad/search/IndTestFisherZGeneralizedInverse.java
java/edu/cmu/tetrad/search/IndTestFisherZPercentIndependent.java
java/edu/cmu/tetrad/search/IndTestFisherZRecursive.java
java/edu/cmu/tetrad/search/IndTestGSquare.java
java/edu/cmu/tetrad/search/IndTestHsic.java
java/edu/cmu/tetrad/search/IndTestIndependenceFacts.java
java/edu/cmu/tetrad/search/IndTestKciMatlab.java
java/edu/cmu/tetrad/search/IndTestLaggedRegression.java
java/edu/cmu/tetrad/search/IndTestMixedMultipleTTest.java
java/edu/cmu/tetrad/search/IndTestMulti.java
java/edu/cmu/tetrad/search/IndTestMultinomialLogisticRegression.java
java/edu/cmu/tetrad/search/IndTestPartialCorrelation.java
java/edu/cmu/tetrad/search/IndTestProbabilistic.java
java/edu/cmu/tetrad/search/IndTestProbabilisticVerbose.java
java/edu/cmu/tetrad/search/IndTestRegression.java
java/edu/cmu/tetrad/search/IndTestRegressionAD.java
java/edu/cmu/tetrad/search/IndTestScore.java
java/edu/cmu/tetrad/search/IndTestSepset.java
java/edu/cmu/tetrad/search/IndTestTimeSeries.java
java/edu/cmu/tetrad/search/IndTestTrekSep.java
java/edu/cmu/tetrad/search/IndTestType.java
java/edu/cmu/tetrad/search/IndependenceTest.java
java/edu/cmu/tetrad/search/IntSextad.java
java/edu/cmu/tetrad/search/InverseCorrelation.java
java/edu/cmu/tetrad/search/Ion.java
java/edu/cmu/tetrad/search/IonHittingSet.java
java/edu/cmu/tetrad/search/IonJoeModifications.java
java/edu/cmu/tetrad/search/IonLegalPairs.java
java/edu/cmu/tetrad/search/Jcpc.java
java/edu/cmu/tetrad/search/Kpc.java
java/edu/cmu/tetrad/search/LegalPairs.java
java/edu/cmu/tetrad/search/Ling.java
java/edu/cmu/tetrad/search/Lingam.java
java/edu/cmu/tetrad/search/LingamPattern.java
java/edu/cmu/tetrad/search/LingamPattern2.java
java/edu/cmu/tetrad/search/LocalDiscreteScore.java
java/edu/cmu/tetrad/search/LocalScoreCache.java
java/edu/cmu/tetrad/search/Lofs.java
java/edu/cmu/tetrad/search/Lofs2.java
java/edu/cmu/tetrad/search/MagToPag.java
java/edu/cmu/tetrad/search/MbClassify.java
java/edu/cmu/tetrad/search/MbSearch.java
java/edu/cmu/tetrad/search/MbUtils.java
java/edu/cmu/tetrad/search/Mbfs.java
java/edu/cmu/tetrad/search/MeekRules.java
java/edu/cmu/tetrad/search/MeekRulesPattern.java
java/edu/cmu/tetrad/search/MeekRulesRestricted.java
java/edu/cmu/tetrad/search/MimAdjacencySearch.java
java/edu/cmu/tetrad/search/MimUtils.java
java/edu/cmu/tetrad/search/Mimbuild2.java
java/edu/cmu/tetrad/search/MimbuildTrek.java
java/edu/cmu/tetrad/search/MixedBicScore.java
java/edu/cmu/tetrad/search/Nlo.java
java/edu/cmu/tetrad/search/OrientCollidersMaxP.java
java/edu/cmu/tetrad/search/PagUtils.java
java/edu/cmu/tetrad/search/PatternToDag.java
java/edu/cmu/tetrad/search/Pc.java
java/edu/cmu/tetrad/search/PcLocal.java
java/edu/cmu/tetrad/search/PcMax.java
java/edu/cmu/tetrad/search/PcMaxLocal.java
java/edu/cmu/tetrad/search/PcPattern.java
java/edu/cmu/tetrad/search/PcStable.java
java/edu/cmu/tetrad/search/Pcd.java
java/edu/cmu/tetrad/search/PermutationMatrixPair.java
java/edu/cmu/tetrad/search/PopulationTetradTest.java
java/edu/cmu/tetrad/search/PossibleDConnectingPath.java
java/edu/cmu/tetrad/search/PossibleDsepCfci.java
java/edu/cmu/tetrad/search/PossibleDsepFci.java
java/edu/cmu/tetrad/search/PossibleGraphicalChangeFinder.java
java/edu/cmu/tetrad/search/ProbFci.java
java/edu/cmu/tetrad/search/ProbabilisticMAPIndependence.java
java/edu/cmu/tetrad/search/Purify.java
java/edu/cmu/tetrad/search/PurifyScoreBased.java
java/edu/cmu/tetrad/search/PurifySextadBased.java
java/edu/cmu/tetrad/search/PurifyTetradBased.java
java/edu/cmu/tetrad/search/PurifyTetradBased2.java
java/edu/cmu/tetrad/search/RecursivePartialCorrelation.java
java/edu/cmu/tetrad/search/Reorienter.java
java/edu/cmu/tetrad/search/ResolveSepsets.java
java/edu/cmu/tetrad/search/Rfci.java
java/edu/cmu/tetrad/search/SampleVcpc.java
java/edu/cmu/tetrad/search/SampleVcpcFast.java
java/edu/cmu/tetrad/search/Score.java
java/edu/cmu/tetrad/search/ScoredGraph.java
java/edu/cmu/tetrad/search/ScoredIndTest.java
java/edu/cmu/tetrad/search/SearchGraphUtils.java
java/edu/cmu/tetrad/search/SearchLogUtils.java
java/edu/cmu/tetrad/search/SemBicScore.java
java/edu/cmu/tetrad/search/SemBicScore2.java
java/edu/cmu/tetrad/search/SemBicScoreImages.java
java/edu/cmu/tetrad/search/SemBicScoreImages2.java
java/edu/cmu/tetrad/search/SemBicScoreImages3.java
java/edu/cmu/tetrad/search/SemGpScore.java
java/edu/cmu/tetrad/search/SemLikelihood2.java
java/edu/cmu/tetrad/search/SepsetMap.java
java/edu/cmu/tetrad/search/SepsetMapDci.java
java/edu/cmu/tetrad/search/SepsetProducer.java
java/edu/cmu/tetrad/search/SepsetsConservative.java
java/edu/cmu/tetrad/search/SepsetsConservativeMajority.java
java/edu/cmu/tetrad/search/SepsetsGreedy.java
java/edu/cmu/tetrad/search/SepsetsMaxPValue.java
java/edu/cmu/tetrad/search/SepsetsMaxPValuePossDsep.java
java/edu/cmu/tetrad/search/SepsetsMaxScore.java
java/edu/cmu/tetrad/search/SepsetsMinPValue.java
java/edu/cmu/tetrad/search/SepsetsMinScore.java
java/edu/cmu/tetrad/search/SepsetsPossibleDsep.java
java/edu/cmu/tetrad/search/SepsetsSet.java
java/edu/cmu/tetrad/search/Sextad.java
java/edu/cmu/tetrad/search/ShiftSearch.java
java/edu/cmu/tetrad/search/Test.java
java/edu/cmu/tetrad/search/TestType.java
java/edu/cmu/tetrad/search/Tetrad.java
java/edu/cmu/tetrad/search/TetradTest.java
java/edu/cmu/tetrad/search/TimeSeriesLagSearch.java
java/edu/cmu/tetrad/search/TimeSeriesUtils.java
java/edu/cmu/tetrad/search/TsDagToPag.java
java/edu/cmu/tetrad/search/TsFci.java
java/edu/cmu/tetrad/search/TsFciOrient.java
java/edu/cmu/tetrad/search/TsFges2.java
java/edu/cmu/tetrad/search/TsGFci.java
java/edu/cmu/tetrad/search/Vcfas.java
java/edu/cmu/tetrad/search/Vcpc.java
java/edu/cmu/tetrad/search/VcpcAlt.java
java/edu/cmu/tetrad/search/VcpcFast.java
java/edu/cmu/tetrad/search/WFges.java
java/edu/cmu/tetrad/search/WGfci.java
java/edu/cmu/tetrad/search/Washdown.java
java/edu/cmu/tetrad/search/XdslXmlConstants.java
java/edu/cmu/tetrad/search/XdslXmlParser.java
java/edu/cmu/tetrad/search/kernel/Kernel.java
java/edu/cmu/tetrad/search/kernel/KernelGaussian.java
java/edu/cmu/tetrad/search/kernel/KernelUtils.java
java/edu/cmu/tetrad/search/mb/HitonMb.java
java/edu/cmu/tetrad/search/mb/HitonVariant.java
java/edu/cmu/tetrad/search/mb/Iamb.java
java/edu/cmu/tetrad/search/mb/IambnPc.java
java/edu/cmu/tetrad/search/mb/InterIamb.java
java/edu/cmu/tetrad/search/mb/Mmhc.java
java/edu/cmu/tetrad/search/mb/Mmmb.java
java/edu/cmu/tetrad/search/mb/MmmbGraphRestricted.java
java/edu/cmu/tetrad/sem/ConnectionFunction.java
java/edu/cmu/tetrad/sem/DagScorer.java
java/edu/cmu/tetrad/sem/EmpiricalCdf.java
java/edu/cmu/tetrad/sem/EmpiricalDistributionForExpression.java
java/edu/cmu/tetrad/sem/GeneralizedSemEstimator.java
java/edu/cmu/tetrad/sem/GeneralizedSemIm.java
java/edu/cmu/tetrad/sem/GeneralizedSemPm.java
java/edu/cmu/tetrad/sem/ISemIm.java
java/edu/cmu/tetrad/sem/LargeScaleSimulation.java
java/edu/cmu/tetrad/sem/Mapping.java
java/edu/cmu/tetrad/sem/ParamComparison.java
java/edu/cmu/tetrad/sem/ParamConstraint.java
java/edu/cmu/tetrad/sem/ParamConstraintType.java
java/edu/cmu/tetrad/sem/ParamType.java
java/edu/cmu/tetrad/sem/Parameter.java
java/edu/cmu/tetrad/sem/ParameterPair.java
java/edu/cmu/tetrad/sem/ReidentifyVariables.java
java/edu/cmu/tetrad/sem/Ricf.java
java/edu/cmu/tetrad/sem/Scorer.java
java/edu/cmu/tetrad/sem/SemEstimator.java
java/edu/cmu/tetrad/sem/SemEstimatorGibbs.java
java/edu/cmu/tetrad/sem/SemEstimatorGibbsParams.java
java/edu/cmu/tetrad/sem/SemEvidence.java
java/edu/cmu/tetrad/sem/SemIm.java
java/edu/cmu/tetrad/sem/SemManipulation.java
java/edu/cmu/tetrad/sem/SemOptimizer.java
java/edu/cmu/tetrad/sem/SemOptimizerEm.java
java/edu/cmu/tetrad/sem/SemOptimizerPowell.java
java/edu/cmu/tetrad/sem/SemOptimizerRegression.java
java/edu/cmu/tetrad/sem/SemOptimizerRicf.java
java/edu/cmu/tetrad/sem/SemOptimizerScattershot.java
java/edu/cmu/tetrad/sem/SemPm.java
java/edu/cmu/tetrad/sem/SemProposition.java
java/edu/cmu/tetrad/sem/SemStdErrorEstimator.java
java/edu/cmu/tetrad/sem/SemUpdater.java
java/edu/cmu/tetrad/sem/SemXmlConstants.java
java/edu/cmu/tetrad/sem/SemXmlParser.java
java/edu/cmu/tetrad/sem/SemXmlRenderer.java
java/edu/cmu/tetrad/sem/StandardizedSemIm.java
java/edu/cmu/tetrad/sem/TemplateExpander.java
java/edu/cmu/tetrad/sem/Tsls.java
java/edu/cmu/tetrad/session/CouldNotCreateModelException.java
java/edu/cmu/tetrad/session/DelegatesEditing.java
java/edu/cmu/tetrad/session/DoNotAddOldModel.java
java/edu/cmu/tetrad/session/Executable.java
java/edu/cmu/tetrad/session/ExecutionRestarter.java
java/edu/cmu/tetrad/session/ModificationRegistery.java
java/edu/cmu/tetrad/session/ParamsResettable.java
java/edu/cmu/tetrad/session/Session.java
java/edu/cmu/tetrad/session/SessionAdapter.java
java/edu/cmu/tetrad/session/SessionEvent.java
java/edu/cmu/tetrad/session/SessionListener.java
java/edu/cmu/tetrad/session/SessionModel.java
java/edu/cmu/tetrad/session/SessionNode.java
java/edu/cmu/tetrad/session/SessionSupport.java
java/edu/cmu/tetrad/session/SimulationParamsSource.java
java/edu/cmu/tetrad/session/SimulationStudy.java
java/edu/cmu/tetrad/session/Type1.java
java/edu/cmu/tetrad/session/Type10.java
java/edu/cmu/tetrad/session/Type11.java
java/edu/cmu/tetrad/session/Type12.java
java/edu/cmu/tetrad/session/Type2.java
java/edu/cmu/tetrad/session/Type3.java
java/edu/cmu/tetrad/session/Type4.java
java/edu/cmu/tetrad/session/Type5.java
java/edu/cmu/tetrad/session/Type6.java
java/edu/cmu/tetrad/session/Type7.java
java/edu/cmu/tetrad/session/Type8.java
java/edu/cmu/tetrad/session/Type9.java
java/edu/cmu/tetrad/simulation/Gdistance.java
java/edu/cmu/tetrad/simulation/GdistanceApply.java
java/edu/cmu/tetrad/simulation/GdistanceRandom.java
java/edu/cmu/tetrad/simulation/GdistanceRandomApply.java
java/edu/cmu/tetrad/simulation/GdistanceTest.java
java/edu/cmu/tetrad/simulation/GdistanceUtils.java
java/edu/cmu/tetrad/simulation/Hsim.java
java/edu/cmu/tetrad/simulation/HsimAutoC.java
java/edu/cmu/tetrad/simulation/HsimAutoRun.java
java/edu/cmu/tetrad/simulation/HsimCompareRepeat.java
java/edu/cmu/tetrad/simulation/HsimContinuous.java
java/edu/cmu/tetrad/simulation/HsimEvalFromData.java
java/edu/cmu/tetrad/simulation/HsimRepeatAC.java
java/edu/cmu/tetrad/simulation/HsimRepeatAuto.java
java/edu/cmu/tetrad/simulation/HsimRepeatAutoRun.java
java/edu/cmu/tetrad/simulation/HsimRobustCompare.java
java/edu/cmu/tetrad/simulation/HsimRun.java
java/edu/cmu/tetrad/simulation/HsimSchedule.java
java/edu/cmu/tetrad/simulation/HsimStudy.java
java/edu/cmu/tetrad/simulation/HsimStudyAuto.java
java/edu/cmu/tetrad/simulation/HsimUtils.java
java/edu/cmu/tetrad/simulation/PRAOerrors.java
java/edu/cmu/tetrad/simulation/ReadMe
java/edu/cmu/tetrad/simulation/Vicinity.java
java/edu/cmu/tetrad/stat/RealVariance.java
java/edu/cmu/tetrad/stat/RealVarianceVector.java
java/edu/cmu/tetrad/stat/RealVarianceVectorForkJoin.java
java/edu/cmu/tetrad/stat/Variance.java
java/edu/cmu/tetrad/stat/VarianceVector.java
java/edu/cmu/tetrad/stat/VarianceVectorForkJoin.java
java/edu/cmu/tetrad/stat/correlation/Covariance.java
java/edu/cmu/tetrad/stat/correlation/CovarianceMatrix.java
java/edu/cmu/tetrad/stat/correlation/CovarianceMatrixOnTheFly.java
java/edu/cmu/tetrad/stat/correlation/RealCovariance.java
java/edu/cmu/tetrad/stat/correlation/RealCovarianceMatrix.java
java/edu/cmu/tetrad/stat/correlation/RealCovarianceMatrixOnTheFly.java
java/edu/cmu/tetrad/util/ArrUtils.java
java/edu/cmu/tetrad/util/ChoiceGenerator.java
java/edu/cmu/tetrad/util/CombinationGenerator.java
java/edu/cmu/tetrad/util/CombinationIterator.java
java/edu/cmu/tetrad/util/CutoffFinder.java
java/edu/cmu/tetrad/util/DataUtility.java
java/edu/cmu/tetrad/util/DefaultTetradLoggerConfig.java
java/edu/cmu/tetrad/util/DepthChoiceGenerator.java
java/edu/cmu/tetrad/util/Experimental.java
java/edu/cmu/tetrad/util/ForkJoinPoolInstance.java
java/edu/cmu/tetrad/util/Function.java
java/edu/cmu/tetrad/util/IM.java
java/edu/cmu/tetrad/util/IndexedMatrix.java
java/edu/cmu/tetrad/util/Integrator.java
java/edu/cmu/tetrad/util/JOptionUtils.java
java/edu/cmu/tetrad/util/JsonUtils.java
java/edu/cmu/tetrad/util/LingUtils.java
java/edu/cmu/tetrad/util/LogUtils.java
java/edu/cmu/tetrad/util/MathUtils.java
java/edu/cmu/tetrad/util/MatrixUtils.java
java/edu/cmu/tetrad/util/Memorable.java
java/edu/cmu/tetrad/util/MultiDimIntTable.java
java/edu/cmu/tetrad/util/NamingProtocol.java
java/edu/cmu/tetrad/util/NumberFormatUtil.java
java/edu/cmu/tetrad/util/PM.java
java/edu/cmu/tetrad/util/ParamDescription.java
java/edu/cmu/tetrad/util/ParamDescriptions.java
java/edu/cmu/tetrad/util/Parameters.java
java/edu/cmu/tetrad/util/PartialCorrelationPdf.java
java/edu/cmu/tetrad/util/PermutationGenerator.java
java/edu/cmu/tetrad/util/Point.java
java/edu/cmu/tetrad/util/PointXy.java
java/edu/cmu/tetrad/util/ProbUtils.java
java/edu/cmu/tetrad/util/RandomUtil.java
java/edu/cmu/tetrad/util/RocCalculator.java
java/edu/cmu/tetrad/util/SelectionGenerator.java
java/edu/cmu/tetrad/util/StatUtils.java
java/edu/cmu/tetrad/util/TaskManager.java
java/edu/cmu/tetrad/util/TetradAlgebra.java
java/edu/cmu/tetrad/util/TetradLogger.java
java/edu/cmu/tetrad/util/TetradLoggerConfig.java
java/edu/cmu/tetrad/util/TetradLoggerEvent.java
java/edu/cmu/tetrad/util/TetradLoggerListener.java
java/edu/cmu/tetrad/util/TetradMatrix.java
java/edu/cmu/tetrad/util/TetradSerializable.java
java/edu/cmu/tetrad/util/TetradSerializableExcluded.java
java/edu/cmu/tetrad/util/TetradSerializableUtils.java
java/edu/cmu/tetrad/util/TetradVector.java
java/edu/cmu/tetrad/util/TextTable.java
java/edu/cmu/tetrad/util/Unmarshallable.java
java/edu/cmu/tetrad/util/Version.java
java/edu/cmu/tetrad/util/dist/Beta.java
java/edu/cmu/tetrad/util/dist/ChiSquare.java
java/edu/cmu/tetrad/util/dist/Discrete.java
java/edu/cmu/tetrad/util/dist/Distribution.java
java/edu/cmu/tetrad/util/dist/Exponential.java
java/edu/cmu/tetrad/util/dist/Gamma.java
java/edu/cmu/tetrad/util/dist/GaussianPower.java
java/edu/cmu/tetrad/util/dist/Indicator.java
java/edu/cmu/tetrad/util/dist/LogNormal.java
java/edu/cmu/tetrad/util/dist/MixtureOfGaussians.java
java/edu/cmu/tetrad/util/dist/Normal.java
java/edu/cmu/tetrad/util/dist/Poisson.java
java/edu/cmu/tetrad/util/dist/SingleValue.java
java/edu/cmu/tetrad/util/dist/Split.java
java/edu/cmu/tetrad/util/dist/TruncatedNormal.java
java/edu/cmu/tetrad/util/dist/Uniform.java
java/edu/pitt/csb/mgm/ConvexProximal.java
java/edu/pitt/csb/mgm/ExampleMixedSearch.java
java/edu/pitt/csb/mgm/ExploreIndepTests.java
java/edu/pitt/csb/mgm/IndTestMultinomialLogisticRegressionWald.java
java/edu/pitt/csb/mgm/MGM.java
java/edu/pitt/csb/mgm/MixedUtils.java
java/edu/pitt/csb/mgm/ProximalGradient.java
java/edu/pitt/csb/mgm/test_data/DAG_0_data.txt
java/edu/pitt/csb/mgm/test_data/DAG_0_graph.txt
java/edu/pitt/csb/mgm/test_data/med_test_C.txt
java/edu/pitt/csb/mgm/test_data/med_test_D.txt
java/edu/pitt/csb/mgm/test_data/med_true_graph.txt
java/edu/pitt/csb/mgm/test_data/small_test_C.txt
java/edu/pitt/csb/mgm/test_data/small_test_D.txt
java/edu/pitt/csb/stability/DataGraphSearch.java
java/edu/pitt/csb/stability/SearchWrappers.java
java/edu/pitt/csb/stability/StabilityUtils.java
java/edu/pitt/dbmi/algo/bayesian/constraint/inference/BCInference.java
java/edu/pitt/dbmi/algo/bayesian/constraint/inference/BayesianConstraintInference.java
java/edu/pitt/dbmi/algo/bayesian/constraint/inference/BayesianConstraintInferenceTest.java
java/edu/pitt/dbmi/algo/bootstrap/BootstrapAlgName.java
java/edu/pitt/dbmi/algo/bootstrap/BootstrapEdgeEnsemble.java
java/edu/pitt/dbmi/algo/bootstrap/BootstrapExperiment.java
java/edu/pitt/dbmi/algo/bootstrap/BootstrapSearch.java
java/edu/pitt/dbmi/algo/bootstrap/BootstrapTest.java
java/edu/pitt/dbmi/algo/bootstrap/TestBootstrapExp.java
java/edu/pitt/dbmi/algo/bootstrap/task/BootstrapDatasetAction.java
java/edu/pitt/dbmi/algo/bootstrap/task/BootstrapSearchAction.java
java/edu/pitt/isp/sverchkov/data/ADTree.java
java/edu/pitt/isp/sverchkov/data/ADTreeHelper.java
java/edu/pitt/isp/sverchkov/data/ADTreeTest.java
java/edu/pitt/isp/sverchkov/data/DataTable.java
java/edu/pitt/isp/sverchkov/data/DataTableImpl.java
java/edu/pitt/isp/sverchkov/data/DataTools.java
java/jgpml/CSVtoMatrix.java
java/jgpml/GaussianProcess.java
java/jgpml/LICENCE
java/jgpml/README
java/jgpml/covariancefunctions/CovLINard.java
java/jgpml/covariancefunctions/CovLINone.java
java/jgpml/covariancefunctions/CovNNone.java
java/jgpml/covariancefunctions/CovNNoneNoise.java
java/jgpml/covariancefunctions/CovNoise.java
java/jgpml/covariancefunctions/CovSEard.java
java/jgpml/covariancefunctions/CovSEiso.java
java/jgpml/covariancefunctions/CovSum.java
java/jgpml/covariancefunctions/CovarianceFunction.java
java/jgpml/covariancefunctions/MatrixOperations.java
man/.Rapp.history
man/.Rhistory
man/audiology.Rd man/bayesEst.Rd man/ccd.Rd man/charity.Rd man/randomDag.Rd man/rcausal.Rd man/tetradrunner.Rd vignettes/rcausal.Rmd
bd2kccd/r-causal documentation built on April 30, 2018, 11:25 p.m.