All Classes Interface Summary Class Summary Enum Summary Exception Summary Annotation Types Summary
| Class |
Description |
| AbellanEntropy |
|
| AbstractSearch<M,S> |
A common implementation of a search algorith offering observers, progress and stats.
|
| AbstractSet |
|
| Algorithm<F,R> |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 14.02.2018 10:04
|
| ApproxLP0<F extends GenericFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 17.08.2021 10:56
|
| ApproxLP1<F extends GenericFactor> |
Perform inference using ApproxLP
|
| ApproxLP2<F extends GenericFactor> |
|
| ArraysUtil |
|
| Barren |
|
| BayesianAbstractFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 18:43
|
| BayesianAlgebra |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 14:40
|
| BayesianAndFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 23.08.2021 14:40
|
| BayesianCollector |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 21:14
|
| BayesianDefaultFactor |
BayesianDefaultFactor
|
| BayesianDeterministicFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 15.04.2021 18:51
|
| BayesianEntropy |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 18.12.2020 10:38
|
| BayesianFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 17.03.2021 13:18
|
| BayesianFactorFactory |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 11:11
|
| BayesianFactorUtilities |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 15.04.2021 18:40
|
| BayesianFunctionFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 18:43
|
| BayesianFunctionLogFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 20.08.2021 10:01
|
| BayesianLogFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 15.04.2021 18:17
|
| BayesianLogicFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 30.09.2021 11:22
|
| BayesianNetwork |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 12.02.2018 10:57
|
| BayesianNetworkSampling |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 27.11.2020 17:01
|
| BayesianNoisyOrFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.08.2021 15:33
|
| BayesianNotFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 23.08.2021 14:40
|
| BayesianOperation<F extends BayesianFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 11:43
|
| BayesianOrFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.08.2021 15:33
|
| BayesianToExtensiveVertex |
|
| BayesianToHalfSpace |
|
| BayesianToInterval |
|
| BayesianToVertex |
|
| BayesUAIParser |
Parser for Bayesian Networks in UAI format
|
| BayesUAIWriter |
|
| BeliefPropagation<F extends OperableFactor<F>> |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 14.02.2018 10:03
|
| BIFObject |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 25.01.2021 09:38
|
| BIFParser |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 25.01.2021 09:22
|
| BinarizeEvidence<F extends GenericFactor> |
Multiple evidences can be reduced to a single binary variable by adding
deterministic nodes as children of the observed nodes.
|
| CardinalityChange<F extends GenericFactor> |
|
| CIFParser |
|
| CIFSerializer |
|
| Clique |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 13.02.2018 14:34
|
| CliqueSet |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 13.11.2020 17:22
|
| CNGenerator |
|
| Collector |
|
| CombinationsIterator<E> |
Iterator over the possible combinations of the elements of the arrays given at construction time.
|
| CombinedFactor |
|
| ConditionalFactor<F extends ConditionalFactor<F>> |
|
| ConditionalVariableElimination |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 19.08.2021 13:50
|
| ConstraintsUtil |
|
| Converter<S,T> |
|
| Converter<F extends GenericFactor,G extends GenericFactor,IN extends GraphicalModel<F>,OUT extends GraphicalModel<G>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 16:29
|
| ConverterEvidence<F extends GenericFactor,G extends GenericFactor,IN extends GraphicalModel<F>,OUT extends GraphicalModel<G>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 16:29
|
| ConverterFactory |
TODO should we use dependency injection?
|
| ConverterModel<F extends GenericFactor,G extends GenericFactor,IN extends GraphicalModel<F>,OUT extends GraphicalModel<G>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 16:29
|
| ConverterQuery<F extends GenericFactor,G extends GenericFactor,IN extends GraphicalModel<F>,OUT extends GraphicalModel<G>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 16:29
|
| ConvexHull |
|
| CreateFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 25.03.2021 18:43
|
| CreateFactorBayesian |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 25.03.2021 18:44
|
| CredalApproxLP<F extends FilterableFactor<F>> |
|
| CredalSet |
|
| CredalVariableElimination |
|
| CredoArrays |
|
| CutObserved<F extends FilterableFactor<F>> |
A Network alteration step that cuts outbound arcs of observed nodes and filter the children's factors.
|
| DAGModel<F extends GenericFactor> |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 12.02.2018 10:48
|
| DepthFirst |
|
| DiscreteEM |
|
| DividedFactor |
|
| Domain |
|
| DomainBuilder |
|
| DomainChange<F extends GenericFactor> |
This class can be used to set how a factor should change when a parent is added to
a variable.
|
| DotSerialize |
|
| DoubleValueIterator |
|
| DuplicateModel<F extends GenericFactor> |
|
| EliminationTree |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 06.02.2018 14:29
|
| EvidUAIParser |
Parser for evidence files in UAI format
|
| ExpectationMaximization<F extends OperableFactor<F>> |
Author: Rafael Cabañas and Claudio "Dna" Bonesana
Project: CreMA
|
| ExtensiveHalfspaceFactor |
An extensive credal factor where the bounds are expressed as a set of Linear constraints
over the whole domain of the factor.
|
| ExtensiveLinearFactor<F extends ExtensiveLinearFactor<F>> |
An extensively specified factor based representable as a set of linear constraints
over the complete domain.
|
| ExtensiveLinearToRandomBayesian |
|
| ExtensiveVectorToExtensiveHalfspace |
|
| ExtensiveVertexAbstractFactor |
|
| ExtensiveVertexDefaultAlgebra |
|
| ExtensiveVertexDefaultFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 20.04.2021 10:37
|
| ExtensiveVertexFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 20.04.2021 10:36
|
| ExtensiveVertexFactorBuilder<T extends ExtensiveVertexAbstractFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 19.04.2021 14:07
|
| ExtensiveVertexFactorFactory |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 20.04.2021 11:19
|
| ExtensiveVertexLogFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 20.04.2021 10:38
|
| FactorAlgebra<F extends OperableFactor<F>> |
This class just delegates the operations to the factor implementation.
|
| FactorElimination |
Deprecated. |
| FactorElimination2 |
Deprecated. |
| FactorEliminationModel |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 06.02.2018 09:37
|
| FactorEliminationUtils |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 14:16
|
| FactorQueue<F extends GenericFactor> |
|
| FactorUtil |
A utility class with function to help with factors.
|
| FactorVariableElimination<F extends OperableFactor<F>> |
A specialization of the VariableElimination algorithm for factors that implement
the common operations (Combination, Marginalization). |
| Filter |
|
| FilterableFactor<F extends FilterableFactor<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 17.03.2021 09:49
|
| FilteredFactor |
|
| FindCliques |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 13.02.2018 11:40
|
| FractionalSolver |
Charnes-Cooper transformation
|
| FrequentistEM |
|
| GenericFactor |
A factor.
|
| GenericOperationFunction<F extends GenericFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 12:34
|
| GraphicalModel<F extends GenericFactor> |
|
| GraphToJunctionTreePipe<F extends OperableFactor<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.11.2020 18:22
|
| GraphUtil |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 30.11.2020 18:10
|
| Greedy<M,S> |
|
| GreedyWithRandomRestart<M,S> |
|
| HalfspaceToRandomBayesianFactor |
|
| HalfspaceToVertex |
|
| HCredalSet |
|
| HCredalUAIParser |
Parser for H-CREDAL networks in UAI format
|
| HCredalUAIWriter |
|
| IndexIterator |
|
| Inference<M extends GraphicalModel<?>,F extends GenericFactor> |
Common interface of inference algorithm.
|
| InferenceCascade<M extends GraphicalModel<?>,F extends GenericFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 10.03.2021 10:07
|
| InferenceCascadeJoined<M extends GraphicalModel<?>,F extends GenericFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 10.03.2021 10:07
|
| InferenceJoined<M extends GraphicalModel<?>,F extends GenericFactor> |
Common interface of inference algorithm.
|
| Inplace |
Annotation to inform that an operation will perform the changes inline.
|
| Instance |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 25.03.2021 18:42
|
| Instantiation |
|
| IntComparator |
|
| IntervalAbstractFactor |
Author: David Huber
Project: crema
Date: 22.03.2017 18:50
|
| IntervalDefaultFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 19.04.2021 18:50
|
| IntervalFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 17.03.2021 13:20
|
| IntervalFactorFactory |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 22.04.2021 17:38
|
| IntervalLogFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 27.04.2021 18:29
|
| IntervalSet |
|
| IntervalToBayesianMaxEntropy |
|
| IntervalVacuousFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 20.04.2021 09:31
|
| InvokerWithTimeout<R> |
|
| IO |
Access point to all the implemented parsers
|
| Ipopt |
A Java Native Interface for the Ipopt optimization solver.
|
| ISearch<M,S> |
|
| IStatCapable<M> |
|
| IStats<M> |
|
| JoinTree |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 13.11.2020 17:26
|
| JoinTreeBuilder |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 14.02.2018 09:29
|
| JoinTreeBuilderKruskal |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 14.02.2018 09:32
|
| JoinTreeBuilderPrim |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 14.02.2018 09:32
|
| JunctionTree |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 13.11.2020 17:36
|
| JunctionTreeBuilder |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 13.11.2020 15:19
|
| LikelihoodWeightingSampling |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 05.02.2018 13:33
|
| LimitVertices |
|
| LinearFactor |
Marker interface for Linear constraints based factors.
|
| LinearFractionalSolver |
|
| LinearSolver |
A linear programming solver's minimal required interface for CreMA's needs.
|
| LocalSearch<M,S> |
|
| LogBayesianMarginal |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 21:23
|
| LogBayesianOperation<F extends BayesianFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 18:57
|
| LogicSampling |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 05.02.2018 13:32
|
| LogMarginal |
|
| LogSpace |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 20.04.2021 16:56
|
| LogVertexOperation |
|
| LoopyBeliefPropagation<F extends OperableFactor<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 01.03.2021 17:35
|
| LoopyBeliefPropagation.Neighbour |
|
| LPConvexHull |
|
| Marginal |
|
| Marginal |
Marginal problem Objective Function.
|
| Marginal |
Marginal problem Objective Function.
|
| MarginalizedFactor |
|
| MaximumEntropy |
|
| MaxMemoryException |
|
| MaxTimeException |
|
| MergeFactors<F extends GenericFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 27.04.2021 13:59
|
| MergeFactorsBayesian |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 27.04.2021 14:25
|
| MergeFactorsInterval |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 27.04.2021 14:00
|
| MergeObserved<F extends FilterableFactor<F>> |
Author: Claudio "Dna" Bonesana
Project: crema-adaptive
Date: 14.04.2021 09:31
|
| MinDegreeOrdering |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 13.02.2018 14:30
|
| MinFillOrdering |
Clique creation and ordering strategy generator based in the Minimum Fill In Algorithm.
|
| MixedModel |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 10.03.2021 11:57
|
| MOD |
|
| Model<F extends GenericFactor> |
|
| Moralize<F extends GenericFactor> |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 12.02.2018 11:11
|
| Move |
|
| Move |
|
| Neighbourhood |
|
| Neighbourhood |
|
| NeighbourhoodFunction<M,S> |
|
| NetUAIParser<T extends GraphicalModel<? extends GenericFactor>> |
Generic Parser class for PGMs in UAI format
|
| NetUAIWriter<T extends DAGModel<? extends OperableFactor<?>>> |
|
| NetworkReduction |
|
| NLSerializer |
|
| Node |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 06.02.2018 14:29
|
| NodeInfo |
|
| NormalizedFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 28.04.2021 16:36
|
| NoSuchVariableException |
|
| NullChange<F extends GenericFactor> |
A simple implementation of a domain changer that will null every domain if its
domain is altered.
|
| ObjectiveFunction<M,S> |
|
| ObservationBuilder |
|
| OnlineConvexHullAlgebra |
|
| OperableFactor<F extends OperableFactor<F>> |
|
| Operation<F extends OperableFactor<F>> |
A class managing operation on factors.
|
| OperationUtils |
|
| OrderingStrategy |
a Function that takes a model and returns an ordering sequence.
|
| Pipe<F,R> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 13.11.2020 14:12
|
| Posterior |
|
| Posterior |
|
| Precise |
|
| Preprocessor<F extends GenericFactor,M extends GraphicalModel<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 10:49
|
| PreprocessorEvidence<F extends GenericFactor,M extends GraphicalModel<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 10:49
|
| PreprocessorModel<F extends GenericFactor,M extends GraphicalModel<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 10:49
|
| PreprocessorQuery<F extends GenericFactor,M extends GraphicalModel<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 10:49
|
| PriorFactor |
|
| ProbabilityUtil |
|
| ProgressEvent |
|
| ProgressListener |
|
| QuickHull |
|
| RandomUtil |
|
| RandomWalk<M,S> |
|
| ReaderCSV |
|
| ReducedHull |
|
| RemoveBarren<F extends GenericFactor> |
|
| SearchOperation |
|
| SeparateConvexDefaultAlgebra |
|
| SeparateDefaultAlgebra |
|
| SeparateHalfspaceAbstractFactor |
|
| SeparateHalfspaceDefaultFactor |
A separately specified Credal factor that has a list of linear constrains for each
separation.
|
| SeparateHalfspaceFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 26.04.2021 17:13
|
| SeparateHalfspaceFactorFactory |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 26.04.2021 17:23
|
| SeparateHalfspaceFactorUtils |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 26.04.2021 17:47
|
| SeparateIndexIterator |
Iterator over two separate strides/
|
| SeparateLinearFactor<F extends SeparateLinearFactor<F>> |
|
| SeparateLinearToExtensiveHalfspaceFactor |
|
| SeparateLinearToHalfspaceFactor |
|
| SeparateLinearToRandomBayesian |
Converts a Separately Specified Linear Credal Factor ( SeparateLinearFactor)
to a BayesianFactor by returning a vertex obtained using a random direction
in the linear optimization. |
| SeparatelySpecified<F extends SeparatelySpecified<F>> |
A separately specified Factor has a for each possible
combination of its "grouping" domain.
|
| SeparatelySpecifiedCredalFactor<S extends CredalSet> |
A separately specified credal set where there is a set of something for each instantiation
of the parents.
|
| SeparateVertexToExtensiveVertex |
|
| SePolyController |
|
| SePolyVE |
Precise Separately specified polytree inference algorithm.
|
| SimpleBayesianFilter |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 21:21
|
| SimpleBayesianMarginal |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 21:23
|
| SimpleBayesianOperation<F extends BayesianFactor> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 21.04.2021 18:57
|
| SimpleDomain |
Domain implementation that does not include strides.
|
| SimpleVertexOperation |
|
| Simplex |
An implementation of the LinearSolver interface based on apache's
SimplexSolver.
|
| Simplex |
|
| Solution |
|
| Solution |
|
| SolverFactory |
|
| SolverSerializer |
|
| StochasticSampling |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 02.02.2018 09:17
|
| Strides |
An implementation of the domain that stores also the strides of the
variables.
|
| SymbolicAbstractFactor |
|
| SymbolicExecution<F extends OperableFactor<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 28.04.2021 17:19
|
| SymbolicFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 28.04.2021 15:04
|
| TopologicalOrder |
|
| TopologicalOrder2 |
|
| TopologicalOrdering |
|
| TransformerEvidence<F extends GenericFactor,M extends GraphicalModel<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 16:29
|
| TransformerModel<F extends GenericFactor,M extends GraphicalModel<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 16:29
|
| TransformerQuery<F extends GenericFactor,M extends GraphicalModel<F>> |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 09.03.2021 16:29
|
| Triangulate |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 12.02.2018 11:34
|
| TriangulatedGraph |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 13.11.2020 14:49
|
| TypesIO |
|
| UAIParser<T> |
Generic parser class for UAI format
|
| UAITypes |
|
| UAIWriter<T> |
|
| Utils |
|
| VariableElimination<F extends OperableFactor<F>> |
|
| VCredalUAIParser |
Parser for V-CREDAL networks in UAI format
|
| VCredalUAIWriter |
|
| VertexAbstractFactor |
A Separately specified Vertex based credal factor.
|
| VertexDefaultFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 21:45
|
| VertexDeterministicFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 21:46
|
| VertexFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 17.03.2021 13:19
|
| VertexFactorFactory |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 19.04.2021 14:41
|
| VertexFactorUtilities |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 22:18
|
| VertexFunctionFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 21:49
|
| VertexHashStrategy |
|
| VertexLogFactor |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 21:46
|
| VertexNetworkSampling |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 27.11.2020 16:55
|
| VertexOperation |
|
| VertexPair<V> |
Author: Claudio "Dna" Bonesana
Project: CreMA
Date: 12.02.2018 14:21
|
| VertexSet |
|
| VertexToInterval |
|
| VertexToRandomBayesian |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 18.08.2021 13:44
|
| VerticesModel |
Author: Claudio "Dna" Bonesana
Project: crema
Date: 16.04.2021 22:24
|
| VoidChange<F extends GenericFactor> |
|
| VoidFactor |
|
| WriterCSV |
|
| XMLBIFParser |
|