Uses of Interface
edu.cmu.tetrad.algcomparison.algorithm.Algorithm

Packages that use Algorithm

Package	Description
edu.cmu.tetrad.algcomparison.algorithm
edu.cmu.tetrad.algcomparison.algorithm.cluster
edu.cmu.tetrad.algcomparison.algorithm.continuous.dag
edu.cmu.tetrad.algcomparison.algorithm.external
edu.cmu.tetrad.algcomparison.algorithm.mixed
edu.cmu.tetrad.algcomparison.algorithm.multi
edu.cmu.tetrad.algcomparison.algorithm.oracle.cpdag
edu.cmu.tetrad.algcomparison.algorithm.oracle.pag
edu.cmu.tetrad.algcomparison.algorithm.oracle.pattern
edu.cmu.tetrad.algcomparison.algorithm.other
edu.cmu.tetrad.algcomparison.algorithm.pairwise
edu.cmu.tetrad.algcomparison.utils
edu.cmu.tetrad.util
edu.pitt.dbmi.algo.resampling
edu.pitt.dbmi.algo.resampling.task

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm

Subinterfaces of Algorithm in edu.cmu.tetrad.algcomparison.algorithm

Modifier and Type	Interface	Description
interface	MultiDataSetAlgorithm	Implements an algorithm that takes multiple data sets as input.

Classes in edu.cmu.tetrad.algcomparison.algorithm that implement Algorithm

Modifier and Type	Class	Description
class	ExternalAlgorithm	Tags an an algorithm that loads up external graphs for inclusion in reports.
class	FirstInflection	First inflection point.
class	StabilitySelection	Stability selection.
class	StARS	StARS

Methods in edu.cmu.tetrad.algcomparison.algorithm that return Algorithm

Modifier and Type	Method	Description
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, IndependenceWrapper test, ScoreWrapper score)	Creates an algorithm.
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, IndependenceWrapper test, ScoreWrapper score, Graph externalGraph)	Creates an algorithm.
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, Class<? extends IndependenceWrapper> indTestClass, Class<? extends ScoreWrapper> scoreClass)	Creates an algorithm.
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, Class<? extends IndependenceWrapper> indTestClass, Class<? extends ScoreWrapper> scoreClass, Graph externalGraph)	Creates an algorithm.

Methods in edu.cmu.tetrad.algcomparison.algorithm that return types with arguments of type Algorithm

Modifier and Type	Method	Description
List<Algorithm>	Algorithms.getAlgorithms()	Returns the list of algorithm.

Methods in edu.cmu.tetrad.algcomparison.algorithm with parameters of type Algorithm

Modifier and Type	Method	Description
void	Algorithms.add(Algorithm algorithm)	Adds an algorithm.

Method parameters in edu.cmu.tetrad.algcomparison.algorithm with type arguments of type Algorithm

Modifier and Type	Method	Description
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, IndependenceWrapper test, ScoreWrapper score)	Creates an algorithm.
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, IndependenceWrapper test, ScoreWrapper score, Graph externalGraph)	Creates an algorithm.
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, Class<? extends IndependenceWrapper> indTestClass, Class<? extends ScoreWrapper> scoreClass)	Creates an algorithm.
static Algorithm	AlgorithmFactory.create(Class<? extends Algorithm> algoClass, Class<? extends IndependenceWrapper> indTestClass, Class<? extends ScoreWrapper> scoreClass, Graph externalGraph)	Creates an algorithm.

Constructors in edu.cmu.tetrad.algcomparison.algorithm with parameters of type Algorithm

Modifier	Constructor	Description
	FirstInflection(Algorithm algorithm, String parameter, double low, double high, double increment)
	StabilitySelection(Algorithm algorithm)
	StARS(Algorithm algorithm, String parameter, double low, double high)

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.cluster

Classes in edu.cmu.tetrad.algcomparison.algorithm.cluster that implement Algorithm

Modifier and Type	Class	Description
class	Bpc	Build Pure Clusters.
class	Fofc	Find One Factor Clusters.
class	Ftfc	FTFC.

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.continuous.dag

Classes in edu.cmu.tetrad.algcomparison.algorithm.continuous.dag that implement Algorithm

Modifier and Type	Class	Description
class	Dagma	DAGMA.
class	DirectLingam	Direct LiNGAM.
class	IcaLingam	LiNGAM.
class	IcaLingD	LiNG-D.

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.external

Classes in edu.cmu.tetrad.algcomparison.algorithm.external that implement Algorithm

Modifier and Type	Class	Description
class	ExternalAlgorithmBnlearnMmhc	An API to allow results from external algorithms to be included in a report through the algrorithm comparison tool.
class	ExternalAlgorithmBNTPc	An API to allow results from external algorithms to be included in a report through the algrorithm comparison tool.
class	ExternalAlgorithmIntersection	An API to allow results from external algorithms to be included in a report through the algrorithm comparison tool.
class	ExternalAlgorithmPcalgGes	An API to allow results from external algorithms to be included in a report through the algrorithm comparison tool.
class	ExternalAlgorithmPcalgPc	An API to allow results from external algorithms to be included in a report through the algrorithm comparison tool.
class	ExternalAlgorithmTetrad	An API to allow results from external algorithms to be included in a report through the algrorithm comparison tool.

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.mixed

Classes in edu.cmu.tetrad.algcomparison.algorithm.mixed that implement Algorithm

Modifier and Type	Class	Description
class	Mgm	MGM.

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.multi

Classes in edu.cmu.tetrad.algcomparison.algorithm.multi that implement Algorithm

Modifier and Type	Class	Description
class	Fask	Wraps the IMaGES algorithm for continuous variables.
class	FaskConcatenated	Wraps the IMaGES algorithm for continuous variables.
class	FaskLofsConcatenated	Wraps the IMaGES algorithm for continuous variables.
class	FaskVote	Wraps the MultiFask algorithm for continuous variables.
class	FasLofs	Wraps the IMaGES algorithm for continuous variables.
class	FciIod	Runs FCI on multiple datasets using the IOD pooled dataset independence test.
class	FgesConcatenated	Requires that the parameter 'randomSelectionSize' be set to indicate how many datasets should be taken at a time (randomly).
class	Images	Wraps the IMaGES algorithm for continuous variables.

Methods in edu.cmu.tetrad.algcomparison.algorithm.multi with parameters of type Algorithm

Modifier and Type	Method	Description
void	Fask.setExternalGraph(Algorithm algorithm)

Constructors in edu.cmu.tetrad.algcomparison.algorithm.multi with parameters of type Algorithm

Modifier	Constructor	Description
	FgesConcatenated(ScoreWrapper score, Algorithm externalGraph)

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.oracle.cpdag

Classes in edu.cmu.tetrad.algcomparison.algorithm.oracle.cpdag that implement Algorithm

Modifier and Type	Class	Description
class	Boss	BOSS-DC (Best Order Score Search Divide and Conquer)
class	Cpc	Conservative PC (CPC).
class	Fas	Fast Adjacency Search (FAS)--i.e., the PC adjacency step, which is used in many algorithms.
class	Fges	FGES (the heuristic version).
class	FgesMb	FGES-MB (the heuristic version).
class	FgesMeasurement	FGES (the heuristic version).
class	GesMe	FGES (the heuristic version).
class	Grasp	GRaSP (Greedy Relaxations of Sparsest Permutation)
class	Pc	Peter/Clark algorithm (PC).
class	Pcd	PC.
class	PcLingam	Peter/Clark algorithm (PC).
class	PcMb	PC.
class	RestrictedBoss	BOSS-DC (Best Order Score Search Divide and Conquer)
class	SingleGraphAlg	PC.
class	Sp	SP (Sparsest Permutation)

Methods in edu.cmu.tetrad.algcomparison.algorithm.oracle.cpdag with parameters of type Algorithm

Modifier and Type	Method	Description
void	Fges.setExternalGraph(Algorithm algorithm)

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.oracle.pag

Classes in edu.cmu.tetrad.algcomparison.algorithm.oracle.pag that implement Algorithm

Modifier and Type	Class	Description
class	Bfci	Adjusts GFCI to use a permutation algorithm (such as BOSS-Tuck) to do the initial steps of finding adjacencies and unshielded colliders.
class	Ccd	CCD (Cyclic Causal Discovery)
class	Cfci	FCI.
class	Fci	FCI.
class	FciMax	FCI.
class	Gfci	GFCI.
class	GraspFci	Adjusts GFCI to use a permutation algorithm (such as BOSS-Tuck) to do the initial steps of finding adjacencies and unshielded colliders.
class	PagSampleRfci	Jan 29, 2023 3:45:09 PM
class	Rfci	RFCI.
class	RfciBsc	Jan 4, 2019 4:32:05 PM
class	SpFci	Adjusts GFCI to use a permutation algorithm (in this case SP) to do the initial steps of finding adjacencies and unshielded colliders.
class	SvarFci	SvarFCI.
class	SvarGfci	SvarFCI.

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.oracle.pattern

Classes in edu.cmu.tetrad.algcomparison.algorithm.oracle.pattern that implement Algorithm

Modifier and Type	Class	Description
class	Cstar

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.other

Classes in edu.cmu.tetrad.algcomparison.algorithm.other that implement Algorithm

Modifier and Type	Class	Description
class	FactorAnalysis	Factor analysis.
class	Glasso	GLASSO.

Uses of Algorithm in edu.cmu.tetrad.algcomparison.algorithm.pairwise

Classes in edu.cmu.tetrad.algcomparison.algorithm.pairwise that implement Algorithm

Modifier and Type	Class	Description
class	Eb	EB.
class	FaskPw	FASK-PW (pairwise).
class	R1	R1.
class	R2	R2.
class	R3	R3.
class	Rskew	RSkew.
class	RskewE	RSkewE.
class	Skew	Skew.
class	SkewE	SkewE.
class	Tanh	Tanh.

Methods in edu.cmu.tetrad.algcomparison.algorithm.pairwise with parameters of type Algorithm

Modifier and Type	Method	Description
void	Eb.setExternalGraph(Algorithm algorithm)
void	FaskPw.setExternalGraph(Algorithm algorithm)
void	R1.setExternalGraph(Algorithm algorithm)
void	R2.setExternalGraph(Algorithm algorithm)
void	R3.setExternalGraph(Algorithm algorithm)
void	Rskew.setExternalGraph(Algorithm algorithm)
void	RskewE.setExternalGraph(Algorithm algorithm)
void	Skew.setExternalGraph(Algorithm algorithm)
void	SkewE.setExternalGraph(Algorithm algorithm)
void	Tanh.setExternalGraph(Algorithm algorithm)

Constructors in edu.cmu.tetrad.algcomparison.algorithm.pairwise with parameters of type Algorithm

Modifier	Constructor	Description
	Eb(Algorithm algorithm)
	FaskPw(Algorithm algorithm)
	R1(Algorithm algorithm)
	R2(Algorithm algorithm)
	R3(Algorithm algorithm)
	Rskew(Algorithm algorithm)
	RskewE(Algorithm algorithm)
	Skew(Algorithm algorithm)
	SkewE(Algorithm algorithm)
	Tanh(Algorithm algorithm)

Uses of Algorithm in edu.cmu.tetrad.algcomparison.utils

Methods in edu.cmu.tetrad.algcomparison.utils with parameters of type Algorithm

Modifier and Type	Method	Description
void	TakesExternalGraph.setExternalGraph(Algorithm algorithm)

Uses of Algorithm in edu.cmu.tetrad.util

Methods in edu.cmu.tetrad.util with parameters of type Algorithm

Modifier and Type	Method	Description
static Set<String>	Params.getAlgorithmParameters(Algorithm algorithm)
static Set<String>	Params.getBootstrappingParameters(Algorithm algorithm)
static Set<String>	Params.getScoreParameters(Algorithm algorithm)
static Set<String>	Params.getTestParameters(Algorithm algorithm)

Uses of Algorithm in edu.pitt.dbmi.algo.resampling

Methods in edu.pitt.dbmi.algo.resampling with parameters of type Algorithm

Modifier and Type	Method	Description
void	GeneralResamplingSearch.setAlgorithm(Algorithm algorithm)

Constructors in edu.pitt.dbmi.algo.resampling with parameters of type Algorithm

Modifier	Constructor	Description
	GeneralResamplingTest(DataSet data, Algorithm algorithm, int numberResampling, double percentResamplingSize, boolean resamplingWithReplacement, int edgeEnsemble, boolean addOriginalDataset)

Uses of Algorithm in edu.pitt.dbmi.algo.resampling.task

Constructors in edu.pitt.dbmi.algo.resampling.task with parameters of type Algorithm

Modifier	Constructor	Description
	GeneralResamplingSearchRunnable(DataModel dataModel, Algorithm algorithm, Parameters parameters, GeneralResamplingSearch resamplingAlgorithmSearch, boolean verbose)