A B C D E F G H I J L M N O P R S T U V W X

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PATTERN_DISCRETIZATIONEXCEPTIONS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_DISCRETIZATIONEXCEPTION_ITEM - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_DYNAMICBAYESNET - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_DYNAMICBAYESNETITEM - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_INTEGERLIST - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_OBSERVATIONSPARSING_WHITESPACE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_STATICBAYESNET - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_STRINGLIST - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_VARCOUNT - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_VARIABLENAMESCHECKFORCOLON - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_VARIABLENAMESCHECKFORCOMMAS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_VARIABLENAMESPARSING_DELS - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_VARIABLENAMESPARSING_WHITESPACE - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_VARIABLENAMESSPECIALDELIMITER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PATTERN_VARIABLENAMES_SPECIALSPECIFIER - Static variable in class edu.duke.cs.banjo.utility.BANJO
 
PostProcessor - class edu.duke.cs.banjo.utility.PostProcessor.
Contains the (optional) post-processing actions.
PostProcessor(Settings) - Constructor for class edu.duke.cs.banjo.utility.PostProcessor
 
PreProcessor - class edu.duke.cs.banjo.utility.PreProcessor.
Contains the pre-processing actions (not yet implemented).
PreProcessor(Settings) - Constructor for class edu.duke.cs.banjo.utility.PreProcessor
 
PreprocessedObservations - class edu.duke.cs.banjo.data.observations.PreprocessedObservations.
Contains a single, basic, set of observation data (usually supplied by a single file).
PreprocessedObservations(Settings) - Constructor for class edu.duke.cs.banjo.data.observations.PreprocessedObservations
 
PreprocessedObservationsWithFileInfo - class edu.duke.cs.banjo.data.observations.PreprocessedObservationsWithFileInfo.
Contains a single, basic, set of observation data (usually supplied by a single file).
PreprocessedObservationsWithFileInfo(Settings) - Constructor for class edu.duke.cs.banjo.data.observations.PreprocessedObservationsWithFileInfo
 
Proposer - class edu.duke.cs.banjo.learner.components.Proposer.
Combines common code shared by the different proposer implementations.
Proposer(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.Proposer
 
Proposer.AllowEdgeReversalSelector - class edu.duke.cs.banjo.learner.components.Proposer.AllowEdgeReversalSelector.
 
Proposer.AllowEdgeReversalSelector() - Constructor for class edu.duke.cs.banjo.learner.components.Proposer.AllowEdgeReversalSelector
 
Proposer.EdgeSelector - class edu.duke.cs.banjo.learner.components.Proposer.EdgeSelector.
 
Proposer.EdgeSelector() - Constructor for class edu.duke.cs.banjo.learner.components.Proposer.EdgeSelector
 
Proposer.OmitEdgeReversalSelector - class edu.duke.cs.banjo.learner.components.Proposer.OmitEdgeReversalSelector.
 
Proposer.OmitEdgeReversalSelector() - Constructor for class edu.duke.cs.banjo.learner.components.Proposer.OmitEdgeReversalSelector
 
Proposer.StructureSelector - class edu.duke.cs.banjo.learner.components.Proposer.StructureSelector.
 
Proposer.StructureSelector() - Constructor for class edu.duke.cs.banjo.learner.components.Proposer.StructureSelector
 
ProposerAllLocalMoves - class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves.
Proposes a list of all BayesNetChanges that can be applied in a single step (using addition, deletion, or reversal of a single edge), based on the current network configuration.
ProposerAllLocalMoves(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves
 
ProposerAllLocalMoves.EdgesAsArraySelector - class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves.EdgesAsArraySelector.
 
ProposerAllLocalMoves.EdgesAsArraySelector() - Constructor for class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves.EdgesAsArraySelector
 
ProposerAllLocalMoves.EdgesAsMatrixSelector - class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves.EdgesAsMatrixSelector.
 
ProposerAllLocalMoves.EdgesAsMatrixSelector() - Constructor for class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves.EdgesAsMatrixSelector
 
ProposerAllLocalMoves.multipleMovesStructureSelector - class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves.multipleMovesStructureSelector.
 
ProposerAllLocalMoves.multipleMovesStructureSelector() - Constructor for class edu.duke.cs.banjo.learner.components.ProposerAllLocalMoves.multipleMovesStructureSelector
 
ProposerI - interface edu.duke.cs.banjo.learner.components.ProposerI.
Documents the interface for creating a proposer implementation.
ProposerRandomLocalMove - class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.
Proposes a single potential BayesNetChange based on the current network configuration.
ProposerRandomLocalMove(BayesNetManagerI, Settings) - Constructor for class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove
 
ProposerRandomLocalMove.EdgesAsArraySelector - class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsArraySelector.
 
ProposerRandomLocalMove.EdgesAsArraySelector() - Constructor for class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsArraySelector
 
ProposerRandomLocalMove.EdgesAsMatrixSelector - class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsMatrixSelector.
 
ProposerRandomLocalMove.EdgesAsMatrixSelector() - Constructor for class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsMatrixSelector
 
parentCount - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
parentCount(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
parentCount - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
parentCount(int) - Method in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
parentCount(int) - Method in interface edu.duke.cs.banjo.bayesnet.EdgesWithCachedStatisticsI
 
parentIDlist - Variable in class edu.duke.cs.banjo.bayesnet.NodeScoreCacheItem
 
parentIDs - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
parentIDs - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsMatrixWithCachedStatistics
 
parentNodeID - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetChange
 
parentNodeLag - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetChange
 
parseForTokens(String) - Method in class edu.duke.cs.banjo.data.settings.Settings
 
parseForTokensAfterValidation(String) - Method in class edu.duke.cs.banjo.data.settings.Settings
 
passedInParameters - Variable in class edu.duke.cs.banjo.data.settings.Settings
 
pattern - Variable in class edu.duke.cs.banjo.utility.JZOOWildCardFilter
 
percentLevel - Variable in class edu.duke.cs.banjo.learner.Searcher
 
percentPaddingLength - Variable in class edu.duke.cs.banjo.learner.Searcher
 
placedInCacheScoreTracker - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
postProcessor - Variable in class edu.duke.cs.banjo.application.BanjoThreadHandler
 
potentialParentMatrix - Variable in class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsArraySelector
 
potentialParentMatrix - Variable in class edu.duke.cs.banjo.learner.components.ProposerRandomLocalMove.EdgesAsMatrixSelector
 
preProcessor - Variable in class edu.duke.cs.banjo.application.BanjoThreadHandler
 
prefix - Variable in class edu.duke.cs.banjo.learner.Searcher
 
prepareData() - Method in class edu.duke.cs.banjo.data.observations.ObservationsAsArray
Prepares the observations by applying an (optional) discretization.
prepareData() - Method in class edu.duke.cs.banjo.data.observations.ObservationsAsMatrix
Prepares the observations by applying an (optional) discretization.
prepareFileOutput() - Method in class edu.duke.cs.banjo.data.settings.Settings
 
prepareReport() - Method in class edu.duke.cs.banjo.data.observations.DataPreparer
 
prepareReport() - Method in class edu.duke.cs.banjo.data.observations.DataPreparerBasic
 
prepareReport() - Method in interface edu.duke.cs.banjo.data.observations.DataPreparerI
 
prepareResultsFile() - Method in class edu.duke.cs.banjo.utility.FileUtil
 
prepareXMLOutput() - Method in class edu.duke.cs.banjo.data.settings.Settings
 
prepareXMLResultsFile() - Method in class edu.duke.cs.banjo.utility.FileUtil
 
preprocessedObservationsWithFileInfo - Variable in class edu.duke.cs.banjo.data.observations.Observations
 
printSystemSettings() - Static method in class edu.duke.cs.banjo.utility.XMLProcessor
 
printWriter - Variable in class edu.duke.cs.banjo.utility.FileUtil
 
processCommandLine(String[]) - Method in class edu.duke.cs.banjo.data.settings.Settings
Method to superseed the constructor with command line arguments.
processData - Variable in class edu.duke.cs.banjo.bayesnet.BayesNetManager
 
processData - Variable in class edu.duke.cs.banjo.bayesnet.EdgesAsArrayWithCachedStatistics
 
processData - Variable in class edu.duke.cs.banjo.data.observations.DataPreparer
 
processData - Variable in class edu.duke.cs.banjo.data.observations.Observations
 
processData - Variable in class edu.duke.cs.banjo.data.observations.PreprocessedObservations
 
processData - Variable in class edu.duke.cs.banjo.learner.Searcher
 
processData - Variable in class edu.duke.cs.banjo.learner.components.CycleChecker
 
processData - Variable in class edu.duke.cs.banjo.learner.components.Decider
 
processData - Variable in class edu.duke.cs.banjo.learner.components.EquivalenceChecker
 
processData - Variable in class edu.duke.cs.banjo.learner.components.Evaluator
 
processData - Variable in class edu.duke.cs.banjo.learner.components.Proposer
 
processData - Variable in class edu.duke.cs.banjo.learner.components.Recorder
 
processData - Variable in class edu.duke.cs.banjo.utility.BanjoErrorHandler
 
processData - Variable in class edu.duke.cs.banjo.utility.FileUtil
 
processData - Variable in class edu.duke.cs.banjo.utility.InfluenceScorer
 
processData - Static variable in class edu.duke.cs.banjo.utility.StringUtil
 
processSetting(String, String, String, String, int, Object, Object) - Method in class edu.duke.cs.banjo.data.settings.Settings
Processes the supplied setting.
processXMLResultFiles(String[]) - Method in class edu.duke.cs.banjo.utility.XMLProcessor
 
processedSettings - Variable in class edu.duke.cs.banjo.data.settings.Settings
 
processingInstruction(String, String) - Method in class edu.duke.cs.banjo.utility.XMLProcessor.TextExtractor
 
proposedChangeTypeTracker - Variable in class edu.duke.cs.banjo.learner.components.Proposer
 
proposer - Variable in class edu.duke.cs.banjo.learner.Searcher
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.Searcher
 
provideCollectedStatistics() - Method in interface edu.duke.cs.banjo.learner.SearcherI
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.CycleChecker
 
provideCollectedStatistics() - Method in interface edu.duke.cs.banjo.learner.components.CycleCheckerI
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.Decider
Collects a basic set of decider-related statistics that any subclass can use as default.
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.DeciderGreedy
 
provideCollectedStatistics() - Method in interface edu.duke.cs.banjo.learner.components.DeciderI
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.DeciderMetropolis
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.EquivalenceChecker
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.EquivalenceCheckerBasic
 
provideCollectedStatistics() - Method in interface edu.duke.cs.banjo.learner.components.EquivalenceCheckerI
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.EquivalenceCheckerSkip
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.Evaluator
 
provideCollectedStatistics() - Method in interface edu.duke.cs.banjo.learner.components.EvaluatorI
 
provideCollectedStatistics() - Method in class edu.duke.cs.banjo.learner.components.Proposer
 
provideCollectedStatistics() - Method in interface edu.duke.cs.banjo.learner.components.ProposerI
 
pruneEquivalentNetworks() - Method in class edu.duke.cs.banjo.learner.Searcher
Prunes the set of "current" high-scoring networks into the set of non-equivalent ones

A B C D E F G H I J L M N O P R S T U V W X