Uses of Interface
edu.cmu.tetrad.algcomparison.utils.HasParameters

Packages that use HasParameters

Package	Description
edu.cmu.tetrad.algcomparison.algorithm
edu.cmu.tetrad.algcomparison.algorithm.continuous.dag
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.other
edu.cmu.tetrad.algcomparison.algorithm.pairwise
edu.cmu.tetrad.algcomparison.independence
edu.cmu.tetrad.algcomparison.score
edu.cmu.tetrad.algcomparison.simulation
edu.cmu.tetrad.data.simulation

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

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

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

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

Modifier and Type	Class	Description
class	AbstractBootstrapAlgorithm	This is a base class for bootstrap algorithms.
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

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

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

Modifier and Type	Class	Description
class	Dagma	Implements the DAGMA algorithm.
class	DirectLingam	Direct LiNGAM.
class	Fask	FASK algorithm.
class	FaskOrig	The FaskOrig class is an implementation of the FASK-Orig algorithm for causal discovery.
class	IcaLingam	IcaLingam class implements the Algorithm and ReturnsBootstrapGraphs interface.
class	IcaLingD	IcaLingD is an implementation of the Algorithm interface that performs the ICA-LiNG-D algorithm for discovering causal models for the linear non-Gaussian case where the underlying model might be cyclic.

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

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

Modifier and Type	Class	Description
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.
class	ImagesBoss	Wraps the IMaGES algorithm for continuous variables.

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

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

Modifier and Type	Class	Description
class	Boss	BOSS (Best Order Score Search)
class	Cam	Represents the CAM algorithm, which is a causal additive model search algorithm.
class	Cdnod	CD-NOD wrapper for algcomparison.
class	Cpc	Deprecated.
class	Cstar	Cstar class.
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	Gin	GIN (Generalized Independent Noise Search)
class	Grasp	GRaSP (Greedy Relaxations of Sparsest Permutation)
class	IsFges	IS-FGES (Instance-Specific FGES) wrapper for the algcomparison interface.
class	Pc	Peter/Clark algorithm (PC).
class	Pcd	PC.
class	PcMax	Deprecated.
class	PcMb	PC.
class	Pcmci	PCMCI wrapper for algcomparison.
class	RestrictedBoss	BOSS-DC (Best Order Score Search Divide and Conquer)
class	SingleGraphAlg	PC.
class	Sp	SP (Sparsest Permutation)
class	TwoStep	Deprecated.

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

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

Modifier and Type	Class	Description
class	BossFci	Adjusts FGES-FCI to use a permutation algorithm (such as BOSS-Tuck) to do the initial steps of finding adjacencies and unshielded colliders.
class	BossPod	This class represents the FCIT algorithm, which is an implementation of the FGES-FCI algorithm for learning causal structures from observational data using the BOSS algorithm as an initial CPDAG and using all score-based steps afterward.
class	Ccd	CCD (Cyclic Causal Discovery)
class	Cfci	Deprecated.
class	DmFcit	This class represents the Detect-Mimic-FCIT (DM-FCIT) algorithm, a specialized variant of the DM-PC and FCIT algorithms designed to identify intermediate latent variables.
class	DmFciT2	This class represents the Detect-Mimic-FCIT (DM-FCIT) algorithm, a specialized variant of the DM-PC and FCIT algorithms designed to identify intermediate latent variables.
class	DmPc	Detect-Mimic-PC (DM-PC) algorithm.
class	Fci	The Fast Causal Inference (FCI) algorithm.
class	FciCyclicPw	FCI-CPW: Run FCI with internally constructed PW-forbidden knowledge, then orient edges using a pairwise left-right rule on standardized data in cases that are safe under no-selection-bias cyclic semantics: Tail–tail (—) edges Orient per pairwise rule. Tail–circle (—o) edges If pairwise prefers x→y, set x→y (symmetrically, if prefers y→x, set y→x). Circle–circle (o–o) edges If pairwise prefers x→y, set x o→y (symmetrically for y→x).
class	FciMax	Deprecated.
class	Fcit	This class represents the FCI Targeted Testing (FCIT) algorithm, which is variant of the *-FCI algorithm for learning causal structures from observational data using the BOSS algorithm as an initial CPDAG and using all score-based steps afterward.
class	FgesFci	The Fges-FCI class represents the Greedy Fast Causal Inference algorithm, adjusted as in *-FCI.
class	Gfci	The GFCI class represents the Greedy Fast Causal Inference algorithm, adjusted as in *-FCI.
class	GraspFci	GRaSP-FCI, an implentatation of *-FCI using GRaSP.
class	IsGfci	IS-GFCI (Instance-Specific GFCI) wrapper for the algcomparison interface.
class	PagSampleRfci	Jan 29, 2023 3:45:09 PM
class	Rfci	RFCI.
class	RfciBsc	Runs RFCI-BSC, which is RFCI with bootstrap sampling of PAGs.
class	SpFci	Adjusts GFCI to use a permutation algorithm (in this case SP) to do the initial steps of finding adjacencies and unshielded colliders.

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

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

Modifier and Type	Class	Description
class	FactorAnalysis	Factor analysis.
class	Glasso	GLASSO.
class	MimbuildBollen	Mimbuild Bollen.
class	MimbuildPca	Mimbuild PCA.

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

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

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.

Uses of HasParameters in edu.cmu.tetrad.algcomparison.independence

Subinterfaces of HasParameters in edu.cmu.tetrad.algcomparison.independence

Modifier and Type	Interface	Description
interface	BlockIndependenceWrapper	An interface that extends functionality of the IndependenceWrapper and HasParameters interfaces by adding support for block-specific configuration in independence testing.
interface	IndependenceWrapper	Interface that algorithm must implement.

Classes in edu.cmu.tetrad.algcomparison.independence that implement HasParameters

Modifier and Type	Class	Description
class	BasisFunctionBlocksIndTest	Wrapper for BF-Blocks-Test.
class	BasisFunctionLrt	Wrapper for BF-LRT.
class	BlocksIndTest	Deprecated.
class	BlocksIndTestLemma10	Deprecated.
class	BlocksIndTestTs	Wrapper for BF-Blocks-Test.
class	CciTest	Wrapper for Daudin Conditional Independence test.
class	ChiSquare	Wrapper for Fisher Z test.
class	ConditionalGaussianLrt	Wrapper for Fisher Z test.
class	DegenerateGaussianLrt	Wrapper for DG LRT.
class	DgBicTest	The SemBicTest class implements the IndependenceWrapper interface and represents a test for independence based on SEM BIC algorithm.
class	FisherZ	Wrapper for Fisher Z test.
class	Gin	Wrapper for GIN (Generalized Independent Noise) residual-independence test.
class	GSquare	Wrapper for Fisher Z test.
class	Kci	Wrapper for KCI test.
class	MSeparationTest	Wrapper for M-separation test.
class	MultinomialLogisticRegressionWald	Wrapper for Fisher Z test.
class	Mvplrt	Wrapper for Fisher Z test.
class	PoissonBicTest	The SemBicTest class implements the IndependenceWrapper interface and represents a test for independence based on SEM BIC algorithm.
class	ProbabilisticTest	Dec 17, 2018 3:44:46 PM
class	RankIndependenceTestLemma10Singletons	Deprecated.
class	RankIndependenceTestTs	Wrapper for Rank independence test.
class	RankIndependenceTestTsSingletons	Deprecated.
class	RankIndependenceTestWilkesSingletons	Deprecated.
class	Rcit	Wrapper for RCIT test.
class	SemBicTest	The SemBicTest class implements the IndependenceWrapper interface and represents a test for independence based on SEM BIC algorithm.

Uses of HasParameters in edu.cmu.tetrad.algcomparison.score

Subinterfaces of HasParameters in edu.cmu.tetrad.algcomparison.score

Modifier and Type	Interface	Description
interface	BlockScoreWrapper	Represents an interface for scoring data models using predefined block structures.
interface	ScoreWrapper	Interface that algorithm must implement.

Classes in edu.cmu.tetrad.algcomparison.score that implement HasParameters

Modifier and Type	Class	Description
class	BasisFunctionBicScore	Wrapper for Basis Function BIC Score (Basis-BIC) version.
class	BdeuScore	Wrapper for Fisher Z test.
class	BlocksBicScore	Wrapper for Blocks BIC Score (Blocks-BIC) version.
class	ConditionalGaussianBicScore	Wrapper for Fisher Z test.
class	DegenerateGaussianBicScore	Wrapper for degenerate Gaussian BIC score
class	DiscreteBicScore	Wrapper for Discrete BIC test.
class	EbicScore	Wrapper for linear, Gaussian Extended BIC score (Chen and Chen).
class	GicScores	The GicScores class is an implementation of the ScoreWrapper interface that calculates the Generalized Information Criterion (GIC) scores for a given data model.
final class	InstanceAugmentedSemBicScoreWrapper	Wrapper for InstanceAugmentedSemBicScore that: - pulls the testing DataSet from Params.TESTING_DATA (injected by the algorithm wrapper), - takes the instance row from Params.INSTANCE_ROW, - aligns columns by training variable names, - uses alpha from Params.IS_ALPHA (default 1.0).
final class	IsBDeuScoreWrapper	Wrapper for ISBDeuScore (discrete).
class	MagDgBicScore	Wrapper for degenerate Gaussian BIC score
class	MSepScore	Wrapper for Fisher Z test.
class	MVPBicScore	Wrapper for MVP BIC Score.
class	PoissonPriorScore	Wrapper for the Poisson prior score (Bryan)
class	RankBicScore	Wrapper for linear, Gaussian SEM BIC score.
class	SemBicScore	Wrapper for linear, Gaussian SEM BIC score.
class	ZhangShenBoundScore	Wrapper for linear, Gaussian Extended BIC score (Chen and Chen).

Uses of HasParameters in edu.cmu.tetrad.algcomparison.simulation

Subinterfaces of HasParameters in edu.cmu.tetrad.algcomparison.simulation

Modifier and Type	Interface	Description
interface	Simulation	The interface that simulations must implement.

Classes in edu.cmu.tetrad.algcomparison.simulation that implement HasParameters

Modifier and Type	Class	Description
class	AdditiveAnmSimulator	Additive Noise SEM (ANM-style) simulator wrapper for algcomparison.
class	AdditiveNoiseSimulation	This class represents a Causal Perceptron Network.
class	BayesNetSimulation	Bayes net simulation.
class	ConditionalGaussianSimulation	A simulation method based on the conditional Gaussian assumption.
class	GeneralSemSimulation	The GeneralSemSimulation class represents a simulation using a generalized structural equation model (SEM).
class	GeneralSemSimulationSpecial1	This was used for a simulation to test the FTFC and FOFC algorithm and contains some carefully selected functions to test nonlinearity and non-Gaussianity.
class	GpSemSimulation	NL SEM simulation.
class	HybridCgSimulation	This class represents a Simulation using Structural Equation Modeling (SEM).
class	LeeHastieSimulation	A version of the Lee and Hastic simulation.
class	LgMnarSimulation	This class represents a continuous MNAR simulation.
class	LinearFisherModel	Linear Fisher Model.
class	LinearSineSimulation	A simulation method based on the mixed variable polynomial assumption.
class	NonlinearFunctionsOfLinear	This class represents a nonlinear functions of linear simulation.
class	PostnonlinearCausalModel	This class represents a post-nonlinear causal model.
class	SemSimulation	This class represents a Simulation using Structural Equation Modeling (SEM).
class	SemThenDiscretize	SEM the discretize.
class	SingleDatasetSimulation	A Simulation implementation that returns a single supplied data set.
class	StandardizedSemSimulation	Standardized SEM simulation.
class	TimeSeriesSemSimulation	Time series SEM simulation.

Uses of HasParameters in edu.cmu.tetrad.data.simulation

Classes in edu.cmu.tetrad.data.simulation that implement HasParameters

Modifier and Type	Class	Description
class	LoadContinuousDataAndGraphs	Load data sets and graphs from a directory.
class	LoadContinuousDataAndSingleGraph	Load data sets and graphs from a directory.
class	LoadContinuousDataSmithSim	Load data sets and graphs from a directory.
class	LoadDataAndGraphs	Load data sets and graphs from a directory.
class	LoadDataFromFileWithoutGraph	Load data sets and graphs from a directory.