├── .codespellrc ├── .github └── workflows │ └── codespell.yml ├── .gitignore ├── CODE_OF_CONDUCT.md ├── LICENSE ├── README.md ├── __init__.py ├── causallearn ├── .gitignore ├── __init__.py ├── graph │ ├── AdjacencyConfusion.py │ ├── ArrowConfusion.py │ ├── Dag.py │ ├── Edge.py │ ├── Edges.py │ ├── Endpoint.py │ ├── GeneralGraph.py │ ├── Graph.py │ ├── GraphClass.py │ ├── GraphNode.py │ ├── Node.py │ ├── NodeType.py │ ├── NodeVariableType.py │ ├── SHD.py │ └── __init__.py ├── score │ ├── LocalScoreFunction.py │ ├── LocalScoreFunctionClass.py │ └── __init__.py ├── search │ ├── ConstraintBased │ │ ├── CDNOD.py │ │ ├── FCI.py │ │ ├── PC.py │ │ └── __init__.py │ ├── FCMBased │ │ ├── ANM │ │ │ ├── ANM.py │ │ │ └── __init__.py │ │ ├── PNL │ │ │ ├── PNL.py │ │ │ └── __init__.py │ │ ├── __init__.py │ │ └── lingam │ │ │ ├── CAMUV.py │ │ │ ├── __init__.py │ │ │ ├── base.py │ │ │ ├── bootstrap.py │ │ │ ├── bottom_up_parce_lingam.py │ │ │ ├── causal_effect.py │ │ │ ├── direct_lingam.py │ │ │ ├── hsic.py │ │ │ ├── hsic2.py │ │ │ ├── ica_lingam.py │ │ │ ├── longitudinal_lingam.py │ │ │ ├── multi_group_direct_lingam.py │ │ │ ├── rcd.py │ │ │ ├── utils │ │ │ └── __init__.py │ │ │ ├── var_lingam.py │ │ │ └── varma_lingam.py │ ├── Granger │ │ ├── Granger.py │ │ └── __init__.py │ ├── HiddenCausal │ │ ├── GIN │ │ │ ├── GIN.py │ │ │ └── __init__.py │ │ └── __init__.py │ ├── PermutationBased │ │ ├── BOSS.py │ │ ├── GRaSP.py │ │ ├── __init__.py │ │ └── gst.py │ ├── ScoreBased │ │ ├── CALM.py │ │ ├── ExactSearch.py │ │ ├── GES.py │ │ └── __init__.py │ └── __init__.py └── utils │ ├── CALMUtils.py │ ├── ChoiceGenerator.py │ ├── DAG2CPDAG.py │ ├── DAG2PAG.py │ ├── Dataset.py │ ├── DepthChoiceGenerator.py │ ├── FAS.py │ ├── FastKCI │ ├── FastKCI.py │ └── __init__.py │ ├── GESUtils.py │ ├── GraphUtils.py │ ├── KCI │ ├── GaussianKernel.py │ ├── KCI.py │ ├── Kernel.py │ ├── LinearKernel.py │ ├── PolynomialKernel.py │ └── __init__.py │ ├── MECCheck.py │ ├── MarkovNetwork │ ├── __init__.py │ └── iamb.py │ ├── PCUtils │ ├── BackgroundKnowledge.py │ ├── BackgroundKnowledgeOrientUtils.py │ ├── Helper.py │ ├── Meek.py │ ├── SkeletonDiscovery.py │ ├── UCSepset.py │ └── __init__.py │ ├── PDAG2DAG.py │ ├── PriorityQueue.py │ ├── RCIT │ ├── RCIT.py │ └── __init__.py │ ├── ScoreUtils.py │ ├── TXT2GeneralGraph.py │ ├── TimeseriesVisualization.py │ ├── __init__.py │ └── cit.py ├── docs ├── .gitignore ├── .idea │ ├── .gitignore │ ├── csv-plugin.xml │ ├── docs.iml │ ├── inspectionProfiles │ │ └── profiles_settings.xml │ ├── misc.xml │ ├── modules.xml │ └── vcs.xml ├── .readthedocs.yaml ├── Makefile ├── build │ ├── doctrees │ │ ├── (Conditional) independence tests.doctree │ │ ├── environment.pickle │ │ ├── getting_start.doctree │ │ ├── getting_started.doctree │ │ ├── independenceTests.doctree │ │ ├── independence_tests.doctree │ │ ├── independence_tests_index │ │ │ ├── Chi-Square test.doctree │ │ │ ├── Fisher-z test.doctree │ │ │ ├── G-Square test.doctree │ │ │ ├── Kernel-based conditional independence (KCI) test and independence test.doctree │ │ │ ├── Missing-value Fisher-z test.doctree │ │ │ ├── chisq.doctree │ │ │ ├── fisherz.doctree │ │ │ ├── gsq.doctree │ │ │ ├── index.doctree │ │ │ ├── kci.doctree │ │ │ └── mvfisherz.doctree │ │ ├── index.doctree │ │ ├── score_functions.doctree │ │ ├── score_functions_index │ │ │ ├── BDeu score.doctree │ │ │ ├── BIC score.doctree │ │ │ ├── Generalized score with cross validation.doctree │ │ │ ├── Generalized score with marginal likelihood.doctree │ │ │ ├── bdeu.doctree │ │ │ ├── bic.doctree │ │ │ ├── gcv.doctree │ │ │ ├── gml.doctree │ │ │ └── index.doctree │ │ ├── search_methods.doctree │ │ ├── search_methods_index │ │ │ ├── Causal discovery methods based on constrained functional causal models │ │ │ │ ├── Additive noise models.doctree │ │ │ │ ├── LiNGAM-based methods.doctree │ │ │ │ ├── Post-nonlinear causal models.doctree │ │ │ │ ├── anm.doctree │ │ │ │ ├── index.doctree │ │ │ │ ├── lingam.doctree │ │ │ │ └── pnl.doctree │ │ │ ├── Constrained-based causal discovery methods │ │ │ │ ├── FCI.doctree │ │ │ │ ├── PC.doctree │ │ │ │ └── index.doctree │ │ │ ├── Granger causality │ │ │ │ ├── LinearGranger.doctree │ │ │ │ └── index.doctree │ │ │ ├── Hidden causal representation learning │ │ │ │ ├── Generalized independent noise (GIN) condition-based method.doctree │ │ │ │ ├── gin.doctree │ │ │ │ └── index.doctree │ │ │ ├── Score-based causal discovery methods │ │ │ │ ├── Exact search.doctree │ │ │ │ ├── ExactSearch.doctree │ │ │ │ ├── GES with the BIC score or generalized score.doctree │ │ │ │ ├── GES.doctree │ │ │ │ └── index.doctree │ │ │ └── index.doctree │ │ ├── utilities.doctree │ │ └── utilities_index │ │ │ ├── Evaluations │ │ │ └── index.doctree │ │ │ ├── Graph operations │ │ │ ├── DAG2CPDAG.doctree │ │ │ ├── DAG2PAG.doctree │ │ │ ├── PDAG2DAG.doctree │ │ │ ├── TXT2GeneralGraph.doctree │ │ │ └── index.doctree │ │ │ └── index.doctree │ └── html │ │ ├── .buildinfo │ │ ├── .doctrees │ │ ├── environment.pickle │ │ └── index.doctree │ │ ├── _sources │ │ ├── (Conditional) independence tests.rst.txt │ │ ├── getting_started.rst.txt │ │ ├── independenceTests.rst.txt │ │ ├── independence_tests_index │ │ │ ├── Chi-Square test.rst.txt │ │ │ ├── Fisher-z test.rst.txt │ │ │ ├── G-Square test.rst.txt │ │ │ ├── Kernel-based conditional independence (KCI) test and independence test.rst.txt │ │ │ ├── Missing-value Fisher-z test.rst.txt │ │ │ ├── chisq.rst.txt │ │ │ ├── fisherz.rst.txt │ │ │ ├── gsq.rst.txt │ │ │ ├── index.rst.txt │ │ │ ├── kci.rst.txt │ │ │ └── mvfisherz.rst.txt │ │ ├── index.rst.txt │ │ ├── score_functions.rst.txt │ │ ├── score_functions_index │ │ │ ├── BDeu score.rst.txt │ │ │ ├── BIC score.rst.txt │ │ │ ├── Generalized score with cross validation.rst.txt │ │ │ ├── Generalized score with marginal likelihood.rst.txt │ │ │ ├── bdeu.rst.txt │ │ │ ├── bic.rst.txt │ │ │ ├── gcv.rst.txt │ │ │ ├── gml.rst.txt │ │ │ └── index.rst.txt │ │ ├── search_methods.rst.txt │ │ ├── search_methods_index │ │ │ ├── Causal discovery methods based on constrained functional causal models │ │ │ │ ├── Additive noise models.rst.txt │ │ │ │ ├── LiNGAM-based methods.rst.txt │ │ │ │ ├── Post-nonlinear causal models.rst.txt │ │ │ │ ├── anm.rst.txt │ │ │ │ ├── index.rst.txt │ │ │ │ ├── lingam.rst.txt │ │ │ │ └── pnl.rst.txt │ │ │ ├── Constrained-based causal discovery methods │ │ │ │ ├── FCI.rst.txt │ │ │ │ ├── PC.rst.txt │ │ │ │ └── index.rst.txt │ │ │ ├── Granger causality │ │ │ │ ├── LinearGranger.rst.txt │ │ │ │ └── index.rst.txt │ │ │ ├── Hidden causal representation learning │ │ │ │ ├── Generalized independent noise (GIN) condition-based method.rst.txt │ │ │ │ ├── gin.rst.txt │ │ │ │ └── index.rst.txt │ │ │ ├── Score-based causal discovery methods │ │ │ │ ├── Exact search.rst.txt │ │ │ │ ├── ExactSearch.rst.txt │ │ │ │ ├── GES with the BIC score or generalized score.rst.txt │ │ │ │ ├── GES.rst.txt │ │ │ │ └── index.rst.txt │ │ │ └── index.rst.txt │ │ ├── utilities.rst.txt │ │ └── utilities_index │ │ │ ├── Evaluations │ │ │ └── index.rst.txt │ │ │ ├── Graph operations │ │ │ ├── DAG2CPDAG.rst.txt │ │ │ ├── DAG2PAG.rst.txt │ │ │ ├── PDAG2DAG.rst.txt │ │ │ ├── TXT2GeneralGraph.rst.txt │ │ │ └── index.rst.txt │ │ │ └── index.rst.txt │ │ ├── _static │ │ ├── alabaster.css │ │ ├── basic.css │ │ ├── classic.css │ │ ├── contents.png │ │ ├── css │ │ │ ├── badge_only.css │ │ │ ├── fonts │ │ │ │ ├── Roboto-Slab-Bold.woff │ │ │ │ ├── Roboto-Slab-Bold.woff2 │ │ │ │ ├── Roboto-Slab-Regular.woff │ │ │ │ ├── Roboto-Slab-Regular.woff2 │ │ │ │ ├── fontawesome-webfont.eot │ │ │ │ ├── fontawesome-webfont.svg │ │ │ │ ├── fontawesome-webfont.ttf │ │ │ │ ├── fontawesome-webfont.woff │ │ │ │ ├── fontawesome-webfont.woff2 │ │ │ │ ├── lato-bold-italic.woff │ │ │ │ ├── lato-bold-italic.woff2 │ │ │ │ ├── lato-bold.woff │ │ │ │ ├── lato-bold.woff2 │ │ │ │ ├── lato-normal-italic.woff │ │ │ │ ├── lato-normal-italic.woff2 │ │ │ │ ├── lato-normal.woff │ │ │ │ └── lato-normal.woff2 │ │ │ └── theme.css │ │ ├── custom.css │ │ ├── doctools.js │ │ ├── documentation_options.js │ │ ├── file.png │ │ ├── jquery-3.5.1.js │ │ ├── jquery.js │ │ ├── js │ │ │ ├── badge_only.js │ │ │ ├── html5shiv-printshiv.min.js │ │ │ ├── html5shiv.min.js │ │ │ └── theme.js │ │ ├── language_data.js │ │ ├── minus.png │ │ ├── navigation.png │ │ ├── plus.png │ │ ├── pygments.css │ │ ├── searchtools.js │ │ ├── sidebar.js │ │ ├── sphinxdoc.css │ │ ├── styles.css │ │ ├── underscore-1.13.1.js │ │ └── underscore.js │ │ ├── genindex.html │ │ ├── getting_started.html │ │ ├── independenceTests.html │ │ ├── independence_tests_index │ │ ├── Chi-Square test.html │ │ ├── Fisher-z test.html │ │ ├── G-Square test.html │ │ ├── Kernel-based conditional independence (KCI) test and independence test.html │ │ ├── Missing-value Fisher-z test.html │ │ ├── chisq.html │ │ ├── fisherz.html │ │ ├── gsq.html │ │ ├── index.html │ │ ├── kci.html │ │ └── mvfisherz.html │ │ ├── index.html │ │ ├── objects.inv │ │ ├── score_functions.html │ │ ├── score_functions_index │ │ ├── BDeu score.html │ │ ├── BIC score.html │ │ ├── Generalized score with cross validation.html │ │ ├── Generalized score with marginal likelihood.html │ │ ├── bdeu.html │ │ ├── bic.html │ │ ├── gcv.html │ │ ├── gml.html │ │ └── index.html │ │ ├── search.html │ │ ├── search_methods.html │ │ ├── search_methods_index │ │ ├── Causal discovery methods based on constrained functional causal models │ │ │ ├── anm.html │ │ │ ├── index.html │ │ │ ├── lingam.html │ │ │ └── pnl.html │ │ ├── Constrained-based causal discovery methods │ │ │ ├── FCI.html │ │ │ ├── PC.html │ │ │ └── index.html │ │ ├── Granger causality │ │ │ ├── LinearGranger.html │ │ │ └── index.html │ │ ├── Hidden causal representation learning │ │ │ ├── Generalized independent noise (GIN) condition-based method.html │ │ │ ├── gin.html │ │ │ └── index.html │ │ ├── Score-based causal discovery methods │ │ │ ├── ExactSearch.html │ │ │ ├── GES with the BIC score or generalized score.html │ │ │ ├── GES.html │ │ │ └── index.html │ │ └── index.html │ │ ├── searchindex.js │ │ ├── utilities.html │ │ └── utilities_index │ │ ├── Evaluations │ │ └── index.html │ │ ├── Graph operations │ │ ├── DAG2CPDAG.html │ │ ├── DAG2PAG.html │ │ ├── PDAG2DAG.html │ │ ├── TXT2GeneralGraph.html │ │ └── index.html │ │ └── index.html ├── make.bat ├── requirements.txt └── source │ ├── conf.py │ ├── getting_started.rst │ ├── independence_tests_index │ ├── chisq.rst │ ├── fisherz.rst │ ├── gsq.rst │ ├── index.rst │ ├── kci.rst │ └── mvfisherz.rst │ ├── index.rst │ ├── score_functions_index │ ├── bdeu.rst │ ├── bic.rst │ ├── gcv.rst │ ├── gml.rst │ └── index.rst │ ├── search_methods_index │ ├── Causal discovery methods based on constrained functional causal models │ │ ├── anm.rst │ │ ├── index.rst │ │ ├── lingam.rst │ │ └── pnl.rst │ ├── Constraint-based causal discovery methods │ │ ├── CDNOD.rst │ │ ├── FCI.rst │ │ ├── PC.rst │ │ ├── index.rst │ │ └── pag.png │ ├── Granger causality │ │ ├── LinearGranger.rst │ │ └── index.rst │ ├── Hidden causal representation learning │ │ ├── gin.rst │ │ └── index.rst │ ├── Permutation-based causal discovery methods │ │ ├── BOSS.rst │ │ ├── GRaSP.rst │ │ └── index.rst │ ├── Score-based causal discovery methods │ │ ├── ExactSearch.rst │ │ ├── GES.rst │ │ └── index.rst │ └── index.rst │ ├── table_modified.png │ ├── table_modified_new.png │ ├── utilities.rst │ └── utilities_index │ ├── Datasets.rst │ ├── Evaluations.rst │ ├── Evaluations │ └── index.rst │ ├── Graph operations │ ├── DAG2CPDAG.rst │ ├── DAG2PAG.rst │ ├── PDAG2DAG.rst │ ├── TXT2GeneralGraph.rst │ └── index.rst │ └── index.rst ├── setup.py └── tests ├── Example_CAMUV.ipynb ├── TestANM.py ├── TestBOSS.py ├── TestBackgroundKnowledge.py ├── TestCAMUV.py ├── TestCDNOD.py ├── TestCIT.py ├── TestCIT_FastKCI.py ├── TestCIT_KCI.py ├── TestCIT_RCIT.py ├── TestDAG2PAG.py ├── TestDagMethods.py ├── TestData ├── anm_simulation_1.txt ├── anm_simulation_2.txt ├── anm_simulation_3.txt ├── benchmark_returned_results │ ├── bnlearn_discrete_10000_alarm_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_andes_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_asia_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_barley_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_cancer_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_child_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_earthquake_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_hailfinder_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_hepar2_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_insurance_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_sachs_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_survey_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_water_fci_chisq_0.05.txt │ ├── bnlearn_discrete_10000_win95pts_fci_chisq_0.05.txt │ ├── discrete_10_ges_local_score_BDeu_none_none.txt │ ├── discrete_10_pc_chisq_0.05_stable_0_-1.txt │ ├── discrete_10_pc_gsq_0.05_stable_0_-1.txt │ ├── linear_10_fci_fisherz_0.05.txt │ ├── linear_10_ges_local_score_BIC_none_none.txt │ ├── linear_10_pc_fisherz_0.05_stable_0_0.txt │ ├── linear_10_pc_fisherz_0.05_stable_0_1.txt │ ├── linear_10_pc_fisherz_0.05_stable_0_2.txt │ ├── linear_10_pc_fisherz_0.05_stable_0_3.txt │ ├── linear_10_pc_fisherz_0.05_stable_0_4.txt │ ├── linear_10_pc_fisherz_0.05_stable_1_-1.txt │ ├── linear_10_pc_fisherz_0.05_stable_2_-1.txt │ └── linear_missing_10_mvpc_fisherz_0.05_stable_0_4.txt ├── bnlearn_discrete_10000 │ ├── benchmark_returned_results │ │ ├── alarm_pc_chisq_0.05_stable_0_-1.txt │ │ ├── asia_pc_chisq_0.05_stable_0_-1.txt │ │ ├── barley_pc_chisq_0.05_stable_0_-1.txt │ │ ├── cancer_pc_chisq_0.05_stable_0_-1.txt │ │ ├── child_pc_chisq_0.05_stable_0_-1.txt │ │ ├── earthquake_pc_chisq_0.05_stable_0_-1.txt │ │ ├── hailfinder_pc_chisq_0.05_stable_0_-1.txt │ │ ├── hepar2_pc_chisq_0.05_stable_0_-1.txt │ │ ├── insurance_pc_chisq_0.05_stable_0_-1.txt │ │ ├── sachs_pc_chisq_0.05_stable_0_-1.txt │ │ ├── survey_pc_chisq_0.05_stable_0_-1.txt │ │ ├── water_pc_chisq_0.05_stable_0_-1.txt │ │ └── win95pts_pc_chisq_0.05_stable_0_-1.txt │ ├── data │ │ ├── alarm.txt │ │ ├── andes.txt │ │ ├── asia.txt │ │ ├── barley.txt │ │ ├── cancer.txt │ │ ├── child.txt │ │ ├── earthquake.txt │ │ ├── hailfinder.txt │ │ ├── hepar2.txt │ │ ├── insurance.txt │ │ ├── sachs.txt │ │ ├── survey.txt │ │ ├── water.txt │ │ └── win95pts.txt │ └── truth_dag_graph │ │ ├── alarm.graph.txt │ │ ├── andes.graph.txt │ │ ├── asia.graph.txt │ │ ├── barley.graph.txt │ │ ├── cancer.graph.txt │ │ ├── child.graph.txt │ │ ├── earthquake.graph.txt │ │ ├── hailfinder.graph.txt │ │ ├── hepar2.graph.txt │ │ ├── insurance.graph.txt │ │ ├── sachs.graph.txt │ │ ├── survey.graph.txt │ │ ├── water.graph.txt │ │ └── win95pts.graph.txt ├── data_100000_30.npy ├── data_10000_20.npy ├── data_300_30.npy ├── data_discrete_1.txt ├── data_discrete_10.txt ├── data_discrete_2.txt ├── data_discrete_3.txt ├── data_discrete_4.txt ├── data_discrete_5.txt ├── data_discrete_6.txt ├── data_discrete_7.txt ├── data_discrete_8.txt ├── data_discrete_9.txt ├── data_linear_1.txt ├── data_linear_10.txt ├── data_linear_2.txt ├── data_linear_3.txt ├── data_linear_4.txt ├── data_linear_5.txt ├── data_linear_6.txt ├── data_linear_7.txt ├── data_linear_8.txt ├── data_linear_9.txt ├── data_linear_missing_10.txt ├── graph.1.txt ├── graph.10.txt ├── graph.2.txt ├── graph.3.txt ├── graph.4.txt ├── graph.5.txt ├── graph.6.txt ├── graph.7.txt ├── graph.8.txt ├── graph.9.txt ├── graph_100000_30.npy ├── graph_10000_20.npy ├── graph_300_30.npy ├── image1.png ├── image10.png ├── image2.png ├── image3.png ├── image4.png ├── image5.png ├── image6.png ├── image7.png ├── image8.png ├── image9.png ├── pair0001.txt ├── pnl_simulation_1.txt ├── pnl_simulation_2.txt ├── pnl_simulation_3.txt ├── test_exact_search_simulated_linear_gaussian_CPDAG.txt ├── test_exact_search_simulated_linear_gaussian_data.txt ├── test_ges_simulated_linear_gaussian_CPDAG.txt ├── test_ges_simulated_linear_gaussian_data.txt ├── test_pc_simulated_linear_gaussian_data.txt ├── tetrad_graph_chi_sq_1.png ├── tetrad_graph_chi_sq_1.txt ├── tetrad_graph_chi_sq_10.png ├── tetrad_graph_chi_sq_10.txt ├── tetrad_graph_chi_sq_2.png ├── tetrad_graph_chi_sq_2.txt ├── tetrad_graph_chi_sq_3.png ├── tetrad_graph_chi_sq_3.txt ├── tetrad_graph_chi_sq_4.png ├── tetrad_graph_chi_sq_4.txt ├── tetrad_graph_chi_sq_5.png ├── tetrad_graph_chi_sq_5.txt ├── tetrad_graph_chi_sq_6.png ├── tetrad_graph_chi_sq_6.txt ├── tetrad_graph_chi_sq_7.png ├── tetrad_graph_chi_sq_7.txt ├── tetrad_graph_chi_sq_8.png ├── tetrad_graph_chi_sq_8.txt ├── tetrad_graph_chi_sq_9.png ├── tetrad_graph_chi_sq_9.txt ├── tetrad_graph_discrete_1.png ├── tetrad_graph_discrete_1.txt ├── tetrad_graph_discrete_10.png ├── tetrad_graph_discrete_10.txt ├── tetrad_graph_discrete_2.png ├── tetrad_graph_discrete_2.txt ├── tetrad_graph_discrete_3.png ├── tetrad_graph_discrete_3.txt ├── tetrad_graph_discrete_4.png ├── tetrad_graph_discrete_4.txt ├── tetrad_graph_discrete_5.png ├── tetrad_graph_discrete_5.txt ├── tetrad_graph_discrete_6.png ├── tetrad_graph_discrete_6.txt ├── tetrad_graph_discrete_7.png ├── tetrad_graph_discrete_7.txt ├── tetrad_graph_discrete_8.png ├── tetrad_graph_discrete_8.txt ├── tetrad_graph_discrete_9.png ├── tetrad_graph_discrete_9.txt ├── tetrad_graph_linear_1.png ├── tetrad_graph_linear_1.txt ├── tetrad_graph_linear_10.png ├── tetrad_graph_linear_10.txt ├── tetrad_graph_linear_2.png ├── tetrad_graph_linear_2.txt ├── tetrad_graph_linear_3.png ├── tetrad_graph_linear_3.txt ├── tetrad_graph_linear_4.png ├── tetrad_graph_linear_4.txt ├── tetrad_graph_linear_5.png ├── tetrad_graph_linear_5.txt ├── tetrad_graph_linear_6.png ├── tetrad_graph_linear_6.txt ├── tetrad_graph_linear_7.png ├── tetrad_graph_linear_7.txt ├── tetrad_graph_linear_8.png ├── tetrad_graph_linear_8.txt ├── tetrad_graph_linear_9.png └── tetrad_graph_linear_9.txt ├── TestDirectLiNGAM.py ├── TestEndpoint.py ├── TestEvaluation.py ├── TestExactSearch.py ├── TestFAS.py ├── TestFCI.py ├── TestGES.py ├── TestGIN.py ├── TestGRaSP.py ├── TestGeneralGraphMethods.py ├── TestGranger.py ├── TestGraphUtils.py ├── TestGraphVisualization.py ├── TestICALiNGAM.py ├── TestLocalScore.py ├── TestMECCHECK.py ├── TestMVPC.py ├── TestMVPC_get_parent_missingness_pairs.ipynb ├── TestMVPC_mv_fisherz.py ├── TestMVPC_mv_fisherz_test.py ├── TestPC.py ├── TestPNL.py ├── TestRCD.py ├── TestSkeletonDiscovery.py ├── TestTXT2GeneralGraph.py ├── TestVARLiNGAM.py ├── __init__.py ├── dag.png ├── data_cdnod.txt ├── data_discrete_10.txt ├── data_linear_10.txt ├── data_linear_missing_10.txt ├── example_data1.pk ├── example_data2.pk ├── example_data3.pk ├── example_data4.txt ├── example_data5.txt ├── example_data6.txt ├── fci-test-data ├── PAG1.txt ├── PAG10.txt ├── PAG2.txt ├── PAG3.txt ├── PAG4.txt ├── PAG5.txt ├── PAG6.txt ├── PAG7.txt ├── PAG8.txt ├── PAG9.txt ├── True-Graph1.txt ├── True-Graph10.txt ├── True-Graph2.txt ├── True-Graph3.txt ├── True-Graph4.txt ├── True-Graph5.txt ├── True-Graph6.txt ├── True-Graph7.txt ├── True-Graph8.txt ├── True-Graph9.txt ├── data-1.txt ├── data-10.txt ├── data-2.txt ├── data-3.txt ├── data-4.txt ├── data-5.txt ├── data-6.txt ├── data-7.txt ├── data-8.txt ├── data-9.txt ├── result-py-FCI-1.txt ├── result-py-FCI-10.txt ├── result-py-FCI-2.txt ├── result-py-FCI-3.txt ├── result-py-FCI-4.txt ├── result-py-FCI-5.txt ├── result-py-FCI-6.txt ├── result-py-FCI-7.txt ├── result-py-FCI-8.txt └── result-py-FCI-9.txt ├── mdata ├── collider_indx.csv ├── cpdag_matrix.csv ├── dag_matrix.csv ├── m_indx.csv ├── mar_full_10_5.csv ├── mar_mv_10_5.csv ├── mar_ref_10_5.csv └── parent_m_indx.csv ├── pag.png ├── result.png ├── sample_data_var_lingam.csv ├── test_custom_ci.py ├── test_data_set.csv ├── test_data_set.txt ├── test_data_set_2.txt ├── test_data_set_3.txt └── utils_simulate_data.py /.codespellrc: -------------------------------------------------------------------------------- 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