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INITIALHASHSIZE
- Static variable in class edu.duke.cs.banjo.utility.
BANJO
InfluenceScorer
- class edu.duke.cs.banjo.utility.
InfluenceScorer
.
Computes the influence score for all the edges in a network, based on the work of Jing Yu and Alexander Hartemink, as published in Yu, et al., Bioinformatics (2004).
InfluenceScorer(BayesNetStructureI, Settings)
- Constructor for class edu.duke.cs.banjo.utility.
InfluenceScorer
i
- Variable in class edu.duke.cs.banjo.data.observations.
Counter
ignorableWhitespace(char[], int, int)
- Method in class edu.duke.cs.banjo.utility.
XMLProcessor.TextExtractor
initLogGammaTable()
- Method in class edu.duke.cs.banjo.learner.components.
EvaluatorBDe.LogGammaArray
initMatrix()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics
initMatrix(int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics
initMatrix()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsMatrixWithCachedStatistics
initMatrix(int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsMatrixWithCachedStatistics
initMatrix()
- Method in interface edu.duke.cs.banjo.bayesnet.
EdgesWithCachedStatisticsI
initMatrix(int)
- Method in interface edu.duke.cs.banjo.bayesnet.
EdgesWithCachedStatisticsI
initialParents
- Variable in class edu.duke.cs.banjo.bayesnet.
BayesNetManager
initialProcessParametersAsLoaded
- Variable in class edu.duke.cs.banjo.data.settings.
Settings
initialProcessParametersLowercase
- Variable in class edu.duke.cs.banjo.data.settings.
Settings
initializeBayesNet()
- Method in class edu.duke.cs.banjo.bayesnet.
BayesNetManager
initializeBayesNet(EdgesWithCachedStatisticsI)
- Method in class edu.duke.cs.banjo.bayesnet.
BayesNetManager
initializeBayesNet()
- Method in interface edu.duke.cs.banjo.bayesnet.
BayesNetManagerI
initializeBayesNet(EdgesWithCachedStatisticsI)
- Method in interface edu.duke.cs.banjo.bayesnet.
BayesNetManagerI
innerLoopStart
- Variable in class edu.duke.cs.banjo.learner.
SearcherGreedy
innerLoopStart
- Variable in class edu.duke.cs.banjo.learner.
SearcherSimAnneal
intermediateTime
- Variable in class edu.duke.cs.banjo.learner.
Searcher
intervals
- Variable in class edu.duke.cs.banjo.data.observations.
DataPreparerBasic
intervals
- Variable in class edu.duke.cs.banjo.data.observations.
Discretizer
isChangeAccepted(double, BayesNetChangeI)
- Method in class edu.duke.cs.banjo.learner.components.
Decider
isChangeAccepted(double, BayesNetChangeI)
- Method in class edu.duke.cs.banjo.learner.components.
DeciderGreedy
isChangeAccepted(double, BayesNetChangeI)
- Method in interface edu.duke.cs.banjo.learner.components.
DeciderI
isChangeAccepted(double, BayesNetChangeI)
- Method in class edu.duke.cs.banjo.learner.components.
DeciderMetropolis
isChangeValid(BayesNetManagerI, BayesNetChangeI)
- Method in class edu.duke.cs.banjo.learner.components.
CycleChecker
isChangeValid(BayesNetManagerI, BayesNetChangeI)
- Method in class edu.duke.cs.banjo.learner.components.
CycleCheckerApplyThenCheck
isChangeValid(BayesNetManagerI, BayesNetChangeI)
- Method in class edu.duke.cs.banjo.learner.components.
CycleCheckerCheckThenApply
isChangeValid(BayesNetManagerI, BayesNetChangeI)
- Method in interface edu.duke.cs.banjo.learner.components.
CycleCheckerI
Checks whether the proposed bayesNetChange results in a cycle in the network described by the bayesNetManager.
isCyclic(int, int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinder
isCyclic(int, int[])
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinder
isCyclic(int, int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinderDFS
isCyclic(int, int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinderDFSorig
isCyclic(int, int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinderDFSwithShmueli
isCyclic(BayesNetChangeI)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics
isCyclic()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics
isCyclic(int, int[])
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics
isCyclic(BayesNetChangeI)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsMatrixWithCachedStatistics
isCyclic()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsMatrixWithCachedStatistics
isCyclic(int, int[])
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsMatrixWithCachedStatistics
isCyclic(BayesNetChangeI)
- Method in interface edu.duke.cs.banjo.bayesnet.
EdgesWithCachedStatisticsI
isCyclic()
- Method in interface edu.duke.cs.banjo.bayesnet.
EdgesWithCachedStatisticsI
isCyclic()
- Method in class edu.duke.cs.banjo.learner.components.
CycleCheckerApplyThenCheck
isCyclic()
- Method in class edu.duke.cs.banjo.learner.components.
CycleCheckerCheckThenApply
isCyclicBFS(BayesNetChangeI)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsMatrixWithCachedStatistics
isCyclicDFSorig(BayesNetChangeI)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics
isCyclic__TEST_ENTIRE_STRUC()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinder
isCyclic__TEST_ENTIRE_STRUC()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinderDFS
isCyclic__TEST_ENTIRE_STRUC()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinderDFSorig
isCyclic__TEST_ENTIRE_STRUC()
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics.CycleFinderDFSwithShmueli
isDefaultValueUsed
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
isDefaultValueUsed()
- Method in class edu.duke.cs.banjo.data.settings.
SettingItem
isEquivalent
- Variable in class edu.duke.cs.banjo.learner.
Searcher
isEquivalent(Set, BayesNetStructureI)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceChecker
isEquivalent(Set, BayesNetStructureI)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerBasic
isEquivalent(BayesNetStructureI, BayesNetStructureI)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerBasic
isEquivalent(EdgesAsMatrixWithCachedStatistics, EdgesAsMatrixWithCachedStatistics)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerBasic
isEquivalent(EdgesAsArrayWithCachedStatistics, EdgesAsArrayWithCachedStatistics)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerBasic
isEquivalent(EdgesWithCachedStatisticsI, EdgesWithCachedStatisticsI)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerBasic
isEquivalent(Set, BayesNetStructureI)
- Method in interface edu.duke.cs.banjo.learner.components.
EquivalenceCheckerI
isEquivalent(Set, BayesNetStructureI)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerSkip
isEquivalent(BayesNetStructureI, BayesNetStructureI)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerSkip
isEquivalent(EdgesWithCachedStatisticsI, EdgesWithCachedStatisticsI)
- Method in class edu.duke.cs.banjo.learner.components.
EquivalenceCheckerSkip
isParent(int, int, int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsArrayWithCachedStatistics
isParent(int, int, int)
- Method in class edu.duke.cs.banjo.bayesnet.
EdgesAsMatrixWithCachedStatistics
isParent(int, int, int)
- Method in interface edu.duke.cs.banjo.bayesnet.
EdgesWithCachedStatisticsI
isSettingValueValid(String)
- Method in class edu.duke.cs.banjo.data.settings.
Settings
isValidSetting
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
isValidSetting()
- Method in class edu.duke.cs.banjo.data.settings.
SettingItem
itemNameCanonical
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
itemNameDescriptive
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
itemNameForComparison
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
itemNameForDisplay
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
itemNameFormattedForDisplay
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
itemValueAsLoaded
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
itemValueValidated
- Variable in class edu.duke.cs.banjo.data.settings.
SettingItem
iterationsPerTemperature
- Variable in class edu.duke.cs.banjo.learner.
SearcherSimAnneal
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