Old engine for Continuous Time Bayesian Networks. Superseded by reCTBN. 🐍
https://github.com/madlabunimib/PyCTBN
You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
1 lines
32 KiB
1 lines
32 KiB
Search.setIndex({docnames:["PyCTBN","pyctbn.legacy","pyctbn.legacy.estimators","pyctbn.legacy.optimizers","pyctbn.legacy.structure_graph","pyctbn.legacy.utility","PyCTBN.tests","PyCTBN.tests.estimators","PyCTBN.tests.optimizers","PyCTBN.tests.structure_graph","PyCTBN.tests.utility","basic_main","example","examples","index","modules","setup"],envversion:{"sphinx.domains.c":2,"sphinx.domains.changeset":1,"sphinx.domains.citation":1,"sphinx.domains.cpp":3,"sphinx.domains.index":1,"sphinx.domains.javascript":2,"sphinx.domains.math":2,"sphinx.domains.python":2,"sphinx.domains.rst":2,"sphinx.domains.std":1,sphinx:56},filenames:["PyCTBN.rst","pyctbn.legacy.rst","pyctbn.legacy.estimators.rst","pyctbn.legacy.optimizers.rst","pyctbn.legacy.structure_graph.rst","pyctbn.legacy.utility.rst","PyCTBN.tests.rst","PyCTBN.tests.estimators.rst","PyCTBN.tests.optimizers.rst","PyCTBN.tests.structure_graph.rst","PyCTBN.tests.utility.rst","basic_main.rst","example.rst","examples.rst","index.rst","modules.rst","setup.rst"],objects:{"":{PyCTBN:[0,0,0,"-"]},"pyctbn.legacy":{estimators:[2,0,0,"-"],optimizers:[3,0,0,"-"],structure_graph:[4,0,0,"-"],utility:[5,0,0,"-"]},"pyctbn.legacy.estimators":{fam_score_calculator:[2,0,0,"-"],parameters_estimator:[2,0,0,"-"],structure_constraint_based_estimator:[2,0,0,"-"],structure_estimator:[2,0,0,"-"],structure_score_based_estimator:[2,0,0,"-"]},"pyctbn.legacy.estimators.fam_score_calculator":{FamScoreCalculator:[2,1,1,""]},"pyctbn.legacy.estimators.fam_score_calculator.FamScoreCalculator":{get_fam_score:[2,2,1,""],marginal_likelihood_q:[2,2,1,""],marginal_likelihood_theta:[2,2,1,""],single_cim_xu_marginal_likelihood_q:[2,2,1,""],single_cim_xu_marginal_likelihood_theta:[2,2,1,""],single_internal_cim_xxu_marginal_likelihood_theta:[2,2,1,""],variable_cim_xu_marginal_likelihood_q:[2,2,1,""],variable_cim_xu_marginal_likelihood_theta:[2,2,1,""]},"pyctbn.legacy.estimators.parameters_estimator":{ParametersEstimator:[2,1,1,""]},"pyctbn.legacy.estimators.parameters_estimator.ParametersEstimator":{compute_parameters_for_node:[2,2,1,""],compute_state_res_time_for_node:[2,2,1,""],compute_state_transitions_for_a_node:[2,2,1,""],fast_init:[2,2,1,""]},"pyctbn.legacy.estimators.structure_constraint_based_estimator":{StructureConstraintBasedEstimator:[2,1,1,""]},"pyctbn.legacy.estimators.structure_constraint_based_estimator.StructureConstraintBasedEstimator":{complete_test:[2,2,1,""],compute_thumb_value:[2,2,1,""],ctpc_algorithm:[2,2,1,""],estimate_structure:[2,2,1,""],independence_test:[2,2,1,""],one_iteration_of_CTPC_algorithm:[2,2,1,""]},"pyctbn.legacy.estimators.structure_estimator":{StructureEstimator:[2,1,1,""]},"pyctbn.legacy.estimators.structure_estimator.StructureEstimator":{adjacency_matrix:[2,2,1,""],build_complete_graph:[2,2,1,""],build_removable_edges_matrix:[2,2,1,""],estimate_structure:[2,2,1,""],generate_possible_sub_sets_of_size:[2,2,1,""],save_plot_estimated_structure_graph:[2,2,1,""],save_results:[2,2,1,""],spurious_edges:[2,2,1,""]},"pyctbn.legacy.estimators.structure_score_based_estimator":{StructureScoreBasedEstimator:[2,1,1,""]},"pyctbn.legacy.estimators.structure_score_based_estimator.StructureScoreBasedEstimator":{estimate_parents:[2,2,1,""],estimate_structure:[2,2,1,""],get_score_from_graph:[2,2,1,""]},"pyctbn.legacy.optimizers":{constraint_based_optimizer:[3,0,0,"-"],hill_climbing_search:[3,0,0,"-"],optimizer:[3,0,0,"-"],tabu_search:[3,0,0,"-"]},"pyctbn.legacy.optimizers.constraint_based_optimizer":{ConstraintBasedOptimizer:[3,1,1,""]},"pyctbn.legacy.optimizers.constraint_based_optimizer.ConstraintBasedOptimizer":{optimize_structure:[3,2,1,""]},"pyctbn.legacy.optimizers.hill_climbing_search":{HillClimbing:[3,1,1,""]},"pyctbn.legacy.optimizers.hill_climbing_search.HillClimbing":{optimize_structure:[3,2,1,""]},"pyctbn.legacy.optimizers.optimizer":{Optimizer:[3,1,1,""]},"pyctbn.legacy.optimizers.optimizer.Optimizer":{optimize_structure:[3,2,1,""]},"pyctbn.legacy.optimizers.tabu_search":{TabuSearch:[3,1,1,""]},"pyctbn.legacy.optimizers.tabu_search.TabuSearch":{optimize_structure:[3,2,1,""]},"pyctbn.legacy.structure_graph":{conditional_intensity_matrix:[4,0,0,"-"],network_generator:[4,0,0,"-"],network_graph:[4,0,0,"-"],sample_path:[4,0,0,"-"],set_of_cims:[4,0,0,"-"],structure:[4,0,0,"-"],trajectory:[4,0,0,"-"],trajectory_generator:[4,0,0,"-"]},"pyctbn.legacy.structure_graph.conditional_intensity_matrix":{ConditionalIntensityMatrix:[4,1,1,""]},"pyctbn.legacy.structure_graph.conditional_intensity_matrix.ConditionalIntensityMatrix":{cim:[4,2,1,""],compute_cim_coefficients:[4,2,1,""],state_residence_times:[4,2,1,""],state_transition_matrix:[4,2,1,""]},"pyctbn.legacy.structure_graph.network_generator":{NetworkGenerator:[4,1,1,""]},"pyctbn.legacy.structure_graph.network_generator.NetworkGenerator":{cims:[4,2,1,""],dyn_str:[4,2,1,""],generate_cims:[4,2,1,""],generate_graph:[4,2,1,""],graph:[4,2,1,""],variables:[4,2,1,""]},"pyctbn.legacy.structure_graph.network_graph":{NetworkGraph:[4,1,1,""]},"pyctbn.legacy.structure_graph.network_graph.NetworkGraph":{add_edges:[4,2,1,""],add_nodes:[4,2,1,""],build_p_comb_structure_for_a_node:[4,2,1,""],build_time_columns_filtering_for_a_node:[4,2,1,""],build_time_scalar_indexing_structure_for_a_node:[4,2,1,""],build_transition_filtering_for_a_node:[4,2,1,""],build_transition_scalar_indexing_structure_for_a_node:[4,2,1,""],clear_indexing_filtering_structures:[4,2,1,""],edges:[4,2,1,""],fast_init:[4,2,1,""],get_node_indx:[4,2,1,""],get_ordered_by_indx_set_of_parents:[4,2,1,""],get_parents_by_id:[4,2,1,""],get_positional_node_indx:[4,2,1,""],get_states_number:[4,2,1,""],has_edge:[4,2,1,""],nodes:[4,2,1,""],nodes_indexes:[4,2,1,""],nodes_values:[4,2,1,""],p_combs:[4,2,1,""],remove_edges:[4,2,1,""],remove_node:[4,2,1,""],time_filtering:[4,2,1,""],time_scalar_indexing_strucure:[4,2,1,""],transition_filtering:[4,2,1,""],transition_scalar_indexing_structure:[4,2,1,""]},"pyctbn.legacy.structure_graph.sample_path":{SamplePath:[4,1,1,""]},"pyctbn.legacy.structure_graph.sample_path.SamplePath":{build_structure:[4,2,1,""],build_trajectories:[4,2,1,""],clear_memory:[4,2,1,""],has_prior_net_structure:[4,2,1,""],structure:[4,2,1,""],total_variables_count:[4,2,1,""],trajectories:[4,2,1,""]},"pyctbn.legacy.structure_graph.set_of_cims":{SetOfCims:[4,1,1,""]},"pyctbn.legacy.structure_graph.set_of_cims.SetOfCims":{actual_cims:[4,2,1,""],build_cims:[4,2,1,""],build_times_and_transitions_structures:[4,2,1,""],filter_cims_with_mask:[4,2,1,""],get_cims_number:[4,2,1,""],p_combs:[4,2,1,""]},"pyctbn.legacy.structure_graph.structure":{Structure:[4,1,1,""]},"pyctbn.legacy.structure_graph.structure.Structure":{add_edge:[4,2,1,""],clean_structure_edges:[4,2,1,""],contains_edge:[4,2,1,""],edges:[4,2,1,""],get_node_id:[4,2,1,""],get_node_indx:[4,2,1,""],get_positional_node_indx:[4,2,1,""],get_states_number:[4,2,1,""],nodes_indexes:[4,2,1,""],nodes_labels:[4,2,1,""],nodes_values:[4,2,1,""],remove_edge:[4,2,1,""],remove_node:[4,2,1,""],total_variables_number:[4,2,1,""]},"pyctbn.legacy.structure_graph.trajectory":{Trajectory:[4,1,1,""]},"pyctbn.legacy.structure_graph.trajectory.Trajectory":{complete_trajectory:[4,2,1,""],size:[4,2,1,""],times:[4,2,1,""],trajectory:[4,2,1,""]},"pyctbn.legacy.structure_graph.trajectory_generator":{TrajectoryGenerator:[4,1,1,""]},"pyctbn.legacy.structure_graph.trajectory_generator.TrajectoryGenerator":{CTBN_Sample:[4,2,1,""],multi_trajectory:[4,2,1,""],worker:[4,2,1,""]},"pyctbn.legacy.utility":{abstract_exporter:[5,0,0,"-"],abstract_importer:[5,0,0,"-"],cache:[5,0,0,"-"],json_exporter:[5,0,0,"-"],json_importer:[5,0,0,"-"],sample_importer:[5,0,0,"-"]},"pyctbn.legacy.utility.abstract_exporter":{AbstractExporter:[5,1,1,""]},"pyctbn.legacy.utility.abstract_exporter.AbstractExporter":{add_trajectory:[5,2,1,""],out_file:[5,2,1,""]},"pyctbn.legacy.utility.abstract_importer":{AbstractImporter:[5,1,1,""]},"pyctbn.legacy.utility.abstract_importer.AbstractImporter":{build_list_of_samples_array:[5,2,1,""],build_sorter:[5,2,1,""],clear_concatenated_frame:[5,2,1,""],compute_row_delta_in_all_samples_frames:[5,2,1,""],compute_row_delta_sigle_samples_frame:[5,2,1,""],concatenated_samples:[5,2,1,""],dataset_id:[5,2,1,""],file_path:[5,2,1,""],sorter:[5,2,1,""],structure:[5,2,1,""],variables:[5,2,1,""]},"pyctbn.legacy.utility.cache":{Cache:[5,1,1,""]},"pyctbn.legacy.utility.cache.Cache":{clear:[5,2,1,""],find:[5,2,1,""],put:[5,2,1,""]},"pyctbn.legacy.utility.json_exporter":{JsonExporter:[5,1,1,""]},"pyctbn.legacy.utility.json_exporter.JsonExporter":{cims_to_json:[5,2,1,""],out_file:[5,2,1,""]},"pyctbn.legacy.utility.json_importer":{JsonImporter:[5,1,1,""]},"pyctbn.legacy.utility.json_importer.JsonImporter":{build_sorter:[5,2,1,""],clear_data_frame_list:[5,2,1,""],dataset_id:[5,2,1,""],import_data:[5,2,1,""],import_sampled_cims:[5,2,1,""],import_structure:[5,2,1,""],import_trajectories:[5,2,1,""],import_variables:[5,2,1,""],normalize_trajectories:[5,2,1,""],one_level_normalizing:[5,2,1,""],read_json_file:[5,2,1,""]},"pyctbn.legacy.utility.sample_importer":{SampleImporter:[5,1,1,""]},"pyctbn.legacy.utility.sample_importer.SampleImporter":{build_sorter:[5,2,1,""],dataset_id:[5,2,1,""],import_data:[5,2,1,""]},"PyCTBN.tests":{estimators:[7,0,0,"-"],optimizers:[8,0,0,"-"],structure_graph:[9,0,0,"-"],utility:[10,0,0,"-"]},"PyCTBN.tests.estimators":{test_parameters_estimator:[7,0,0,"-"],test_structure_constraint_based_estimator:[7,0,0,"-"],test_structure_estimator:[7,0,0,"-"],test_structure_score_based_estimator:[7,0,0,"-"]},"PyCTBN.tests.estimators.test_parameters_estimator":{TestParametersEstimatior:[7,1,1,""]},"PyCTBN.tests.estimators.test_parameters_estimator.TestParametersEstimatior":{aux_import_sampled_cims:[7,2,1,""],cim_equality_test:[7,2,1,""],equality_of_cims_of_node:[7,2,1,""],setUpClass:[7,2,1,""],test_compute_parameters_for_node:[7,2,1,""],test_fast_init:[7,2,1,""]},"PyCTBN.tests.estimators.test_structure_constraint_based_estimator":{TestStructureConstraintBasedEstimator:[7,1,1,""]},"PyCTBN.tests.estimators.test_structure_constraint_based_estimator.TestStructureConstraintBasedEstimator":{setUpClass:[7,2,1,""],test_structure_1:[7,2,1,""],test_structure_2:[7,2,1,""],test_structure_3:[7,2,1,""]},"PyCTBN.tests.estimators.test_structure_estimator":{TestStructureEstimator:[7,1,1,""]},"PyCTBN.tests.estimators.test_structure_estimator.TestStructureEstimator":{setUpClass:[7,2,1,""],test_adjacency_matrix:[7,2,1,""],test_build_complete_graph:[7,2,1,""],test_build_removable_edges_matrix:[7,2,1,""],test_generate_possible_sub_sets_of_size:[7,2,1,""],test_init:[7,2,1,""],test_save_plot_estimated_graph:[7,2,1,""],test_save_results:[7,2,1,""],test_time:[7,2,1,""]},"PyCTBN.tests.estimators.test_structure_score_based_estimator":{TestStructureScoreBasedEstimator:[7,1,1,""]},"PyCTBN.tests.estimators.test_structure_score_based_estimator.TestStructureScoreBasedEstimator":{setUpClass:[7,2,1,""],test_structure_1:[7,2,1,""],test_structure_2:[7,2,1,""],test_structure_3:[7,2,1,""],test_structure_monoprocesso:[7,2,1,""]},"PyCTBN.tests.optimizers":{test_hill_climbing_search:[8,0,0,"-"],test_tabu_search:[8,0,0,"-"]},"PyCTBN.tests.optimizers.test_hill_climbing_search":{TestHillClimbingSearch:[8,1,1,""]},"PyCTBN.tests.optimizers.test_hill_climbing_search.TestHillClimbingSearch":{setUpClass:[8,2,1,""],test_structure:[8,2,1,""],test_structure_3:[8,2,1,""]},"PyCTBN.tests.optimizers.test_tabu_search":{TestTabuSearch:[8,1,1,""]},"PyCTBN.tests.optimizers.test_tabu_search.TestTabuSearch":{setUpClass:[8,2,1,""],test_structure:[8,2,1,""],test_structure_3:[8,2,1,""]},"PyCTBN.tests.structure_graph":{test_cim:[9,0,0,"-"],test_networkgenerator:[9,0,0,"-"],test_networkgraph:[9,0,0,"-"],test_sample_path:[9,0,0,"-"],test_setofcims:[9,0,0,"-"],test_structure:[9,0,0,"-"],test_trajectory:[9,0,0,"-"],test_trajectorygenerator:[9,0,0,"-"]},"PyCTBN.tests.structure_graph.test_cim":{TestConditionalIntensityMatrix:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_cim.TestConditionalIntensityMatrix":{setUpClass:[9,2,1,""],test_compute_cim_coefficients:[9,2,1,""],test_init:[9,2,1,""],test_repr:[9,2,1,""]},"PyCTBN.tests.structure_graph.test_networkgenerator":{TestNetworkGenerator:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_networkgenerator.TestNetworkGenerator":{test_generate_cims:[9,2,1,""],test_generate_graph:[9,2,1,""]},"PyCTBN.tests.structure_graph.test_networkgraph":{TestNetworkGraph:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_networkgraph.TestNetworkGraph":{aux_build_p_combs_structure:[9,2,1,""],aux_build_time_columns_filtering_structure_for_a_node:[9,2,1,""],aux_build_time_scalar_indexing_structure_for_a_node:[9,2,1,""],aux_build_transition_columns_filtering_structure:[9,2,1,""],aux_build_transition_scalar_indexing_structure_for_a_node:[9,2,1,""],setUpClass:[9,2,1,""],test_add_edges:[9,2,1,""],test_add_nodes:[9,2,1,""],test_build_p_combs_structure:[9,2,1,""],test_build_time_columns_filtering_structure_for_a_node:[9,2,1,""],test_build_time_scalar_indexing_structure_for_a_node:[9,2,1,""],test_build_transition_columns_filtering_structure:[9,2,1,""],test_build_transition_scalar_indexing_structure_for_a_node:[9,2,1,""],test_fast_init:[9,2,1,""],test_get_node_indx:[9,2,1,""],test_get_ordered_by_indx_set_of_parents:[9,2,1,""],test_get_parents_by_id:[9,2,1,""],test_get_states_number:[9,2,1,""],test_init:[9,2,1,""]},"PyCTBN.tests.structure_graph.test_sample_path":{TestSamplePath:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_sample_path.TestSamplePath":{setUpClass:[9,2,1,""],test_buid_samplepath_no_concatenated_samples:[9,2,1,""],test_buid_samplepath_no_variables:[9,2,1,""],test_build_saplepath_no_prior_net_structure:[9,2,1,""],test_build_structure:[9,2,1,""],test_build_structure_bad_sorter:[9,2,1,""],test_build_trajectories:[9,2,1,""],test_init:[9,2,1,""],test_init_not_filled_dataframse:[9,2,1,""],test_init_not_initialized_importer:[9,2,1,""]},"PyCTBN.tests.structure_graph.test_setofcims":{TestSetOfCims:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_setofcims.TestSetOfCims":{another_filtering_method:[9,2,1,""],aux_test_build_cims:[9,2,1,""],aux_test_init:[9,2,1,""],build_p_comb_structure_for_a_node:[9,2,1,""],setUpClass:[9,2,1,""],test_build_cims:[9,2,1,""],test_filter_cims_with_mask:[9,2,1,""],test_init:[9,2,1,""]},"PyCTBN.tests.structure_graph.test_structure":{TestStructure:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_structure.TestStructure":{setUpClass:[9,2,1,""],test_edges_operations:[9,2,1,""],test_equality:[9,2,1,""],test_get_node_id:[9,2,1,""],test_get_node_indx:[9,2,1,""],test_get_positional_node_indx:[9,2,1,""],test_get_states_number:[9,2,1,""],test_init:[9,2,1,""],test_repr:[9,2,1,""]},"PyCTBN.tests.structure_graph.test_trajectory":{TestTrajectory:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_trajectory.TestTrajectory":{setUpClass:[9,2,1,""],test_init:[9,2,1,""]},"PyCTBN.tests.structure_graph.test_trajectorygenerator":{TestTrajectoryGenerator:[9,1,1,""]},"PyCTBN.tests.structure_graph.test_trajectorygenerator.TestTrajectoryGenerator":{setUpClass:[9,2,1,""],test_generated_trajectory:[9,2,1,""],test_generated_trajectory_max_tr:[9,2,1,""],test_init:[9,2,1,""],test_multi_trajectory:[9,2,1,""]},"PyCTBN.tests.utility":{test_cache:[10,0,0,"-"],test_json_importer:[10,0,0,"-"],test_sample_importer:[10,0,0,"-"]},"PyCTBN.tests.utility.test_cache":{TestCache:[10,1,1,""]},"PyCTBN.tests.utility.test_cache.TestCache":{test_clear:[10,2,1,""],test_find:[10,2,1,""],test_init:[10,2,1,""],test_put:[10,2,1,""]},"PyCTBN.tests.utility.test_json_importer":{TestJsonImporter:[10,1,1,""]},"PyCTBN.tests.utility.test_json_importer.TestJsonImporter":{ordered:[10,2,1,""],setUpClass:[10,2,1,""],test_build_sorter:[10,2,1,""],test_clear_concatenated_frame:[10,2,1,""],test_clear_data_frame_list:[10,2,1,""],test_compute_row_delta_in_all_frames:[10,2,1,""],test_compute_row_delta_in_all_frames_not_init_sorter:[10,2,1,""],test_compute_row_delta_single_samples_frame:[10,2,1,""],test_dataset_id:[10,2,1,""],test_file_path:[10,2,1,""],test_import_data:[10,2,1,""],test_import_sampled_cims:[10,2,1,""],test_import_structure:[10,2,1,""],test_import_variables:[10,2,1,""],test_init:[10,2,1,""],test_normalize_trajectories:[10,2,1,""],test_normalize_trajectories_wrong_indx:[10,2,1,""],test_normalize_trajectories_wrong_key:[10,2,1,""],test_read_json_file_found:[10,2,1,""],test_read_json_file_not_found:[10,2,1,""]},"PyCTBN.tests.utility.test_sample_importer":{TestSampleImporter:[10,1,1,""]},"PyCTBN.tests.utility.test_sample_importer.TestSampleImporter":{ordered:[10,2,1,""],setUpClass:[10,2,1,""],test_init:[10,2,1,""],test_order:[10,2,1,""]},PyCTBN:{PyCTBN:[1,0,0,"-"],tests:[6,0,0,"-"]}},objnames:{"0":["py","module","Python module"],"1":["py","class","Python class"],"2":["py","method","Python method"]},objtypes:{"0":"py:module","1":"py:class","2":"py:method"},terms:{"abstract":[2,3,4,5,13],"boolean":[2,4],"case":[4,7,8,9,10],"class":[2,3,4,5,7,8,9,10,13],"default":[2,3,5],"float":[2,4],"function":2,"import":[4,5,14],"int":[2,3,4,5],"new":5,"null":2,"return":[2,3,4,5,9,13],"static":[2,4],"super":13,"true":[2,13],"var":13,For:4,HAS:5,Has:[2,4],NOT:2,The:[2,4,5,13],Use:[2,13],__actual_cach:5,__generate_cim:4,__init__:13,__list_of_sets_of_par:5,_actual_cim:4,_actual_trajectori:4,_aggregated_info_about_nodes_par:4,_array_indx:5,_cach:2,_cim:4,_complete_graph:2,_df_samples_list:[5,13],_df_structur:5,_df_variabl:[5,13],_dyn_cim:5,_dyn_str:5,_file_path:13,_generated_trajectori:4,_graph:[4,13],_import:4,_indx:4,_label:4,_net_graph:2,_node:2,_node_id:4,_nodes_indx:2,_nodes_v:2,_p_combs_structur:4,_parent:4,_raw_data:5,_sample_path:2,_single_set_of_cim:2,_sorter:[5,13],_state_residence_tim:4,_structur:4,_structure_label:5,_time:4,_time_filt:4,_time_scalar_indexing_structur:4,_total_variables_count:4,_total_variables_numb:4,_trajectori:[4,5],_transition_filt:4,_transition_matric:4,_transition_scalar_indexing_structur:4,_val:4,_variabl:5,_variables_label:5,_vname:4,abc:[3,5],about:[3,4],abstract_export:[0,1,14],abstract_import:[0,1,4,14],abstractexport:5,abstractimport:[4,5,13],accord:4,act:5,actual:[2,4],actual_cim:[4,13],add:[4,5],add_edg:4,add_nod:4,add_trajectori:5,added:[2,4,5],adding:4,addit:2,adjac:[2,13],adjacency_matrix:[2,13],after:[4,5],against:2,aggreg:4,algorithm:[2,3,13],all:[2,3,4,5,9,13],allow:4,along:5,alpha_xu:2,alpha_xxu:2,alreadi:[5,13],also:[2,4],ani:[2,3],anoth:4,another_filtering_method:9,approach:2,arc:5,arrai:[2,4,5,13],assign:2,assum:2,automat:2,aux_build_p_combs_structur:9,aux_build_time_columns_filtering_structure_for_a_nod:9,aux_build_time_scalar_indexing_structure_for_a_nod:9,aux_build_transition_columns_filtering_structur:9,aux_build_transition_scalar_indexing_structure_for_a_nod:9,aux_import_sampled_cim:7,aux_test_build_cim:9,aux_test_init:9,axi:13,base:[2,3,4,5,7,8,9,10],basic_main:15,bayesian:2,been:4,befor:[2,3,7,8,9,10],belong:[2,4],best:2,between:[4,5],bool:[2,4],both:[2,5],bound:4,build:[2,4,5,9,13],build_cim:4,build_complete_graph:2,build_list_of_samples_arrai:5,build_p_comb_structure_for_a_nod:[4,9],build_removable_edges_matrix:2,build_sort:[5,13],build_structur:[4,13],build_time_columns_filtering_for_a_nod:4,build_time_scalar_indexing_structure_for_a_nod:4,build_times_and_transitions_structur:4,build_trajectori:[4,13],build_transition_filtering_for_a_nod:4,build_transition_scalar_indexing_structure_for_a_nod:4,built:2,cach:[0,1,2,14],calcul:2,call:[5,13],can:5,cardin:[2,4,5,9],cardinalit:[4,5],care:4,caridin:4,caridinalit:4,chang:[4,5],check:4,chi:2,chi_test:2,chi_test_alfa:2,child:[2,3],child_indx:2,child_states_numb:2,child_val:2,cim1:[2,7],cim2:[2,7],cim:[2,4,5,13],cim_equality_test:7,cims_kei:5,cims_label:[5,7],cims_to_json:5,classmethod:[7,8,9,10],clean_structure_edg:4,clear:[4,5],clear_concatenated_fram:5,clear_data_frame_list:5,clear_indexing_filtering_structur:4,clear_memori:4,climb:[2,3],coeffici:4,col:4,cols_filt:2,column:[2,4,5,13],columns_head:5,comb:4,combin:[4,5,9],combinatori:[4,9],common:2,complet:[2,4,5],complete_test:2,complete_trajectori:4,comput:[2,3,4,5,13],compute_cim_coeffici:4,compute_parameters_for_nod:[2,13],compute_row_delta_in_all_samples_fram:[5,13],compute_row_delta_sigle_samples_fram:5,compute_state_res_time_for_nod:2,compute_state_transitions_for_a_nod:2,compute_thumb_valu:2,concatanated_sampl:5,concaten:[4,5],concatenated_sampl:5,condit:4,conditional_intensity_matrix:[0,1,2,14],conditionalintensitymatrix:[2,4],consid:[2,4],consider:4,constraint:2,constraint_based_optim:[0,1,14],constraintbasedoptim:3,construct:[4,5,13],conta:5,contain:[2,4,5,9],contains_edg:4,content:[14,15],convent:4,convert:[2,5],copi:5,core:[4,5],correct:[4,5],correspond:4,could:2,count:4,creat:[2,4,5,13],csv:13,csvimport:13,ctbn:2,ctbn_sampl:4,ctpc:[2,3,13],ctpc_algorithm:[2,13],current:[2,3,5],cut:5,dafram:5,data:[2,3,4,5,14],datafram:[4,5,13],dataset:[3,4,5],dataset_id:[5,13],datfram:5,def:13,defin:[4,5],definit:5,defualt:2,delta:[2,4,5],demonstr:13,densiti:4,describ:5,desir:[2,4],df_samples_list:5,dict:[4,5,13],dictionari:5,differ:5,differt:2,digraph:2,dimens:4,dir:13,direct:[2,4],directli:5,directori:5,disabl:[2,3],disable_multiprocess:2,distribuit:2,doc:5,doubl:4,download:13,drop:13,duplic:4,dyn:13,dyn_cim:[4,5],dyn_str:[4,5],each:[2,3,4,5],edg:[2,4,5,13],edges_list:4,end:[4,5],entir:2,equal:4,equality_of_cims_of_nod:7,est:13,estim:[0,1,3,4,6,14],estimate_par:2,estimate_structur:2,estimated_cim:7,everi:[4,5],exam:13,exampl:[5,14,15],exclud:2,exctract:5,execut:4,exist:[4,5],exp_test_alfa:2,exponenti:2,expos:5,extend:13,extens:[2,5],extract:[4,5],fals:[2,4],fam_score_calcul:[0,1,14],famscor:2,famscorecalcul:2,fast_init:[2,4,13],file:[2,5,13],file_path:[2,5,13],filenam:5,filepath:5,fill:[2,13],filter:[2,4],filter_cims_with_mask:4,find:[2,5],first:[2,13],fix:4,fixtur:[7,8,9,10],follow:[4,5],form:4,format:[5,13],formula:2,found:5,frame:[4,5],from:[4,5,13],from_nod:5,gener:[2,4,5],generate_cim:4,generate_graph:4,generate_possible_sub_sets_of_s:2,get:[2,5],get_cims_numb:4,get_fam_scor:2,get_node_id:4,get_node_indx:4,get_ordered_by_indx_set_of_par:4,get_parents_by_id:4,get_positional_node_indx:4,get_score_from_graph:2,get_states_numb:4,given:[2,4,5],glob:13,graph:[2,4,9,13],graph_struct:4,graphic:2,grid:[4,9],group:4,grpah:13,has:[4,5,13],has_edg:4,has_prior_net_structur:4,have:5,header:5,header_column:5,hill:[2,3],hill_climbing_search:[0,1,14],hillclimb:3,hold:[2,4],hook:[7,8,9,10],how:5,hyperparamet:2,hypothesi:2,identifi:[2,4,5],iff:2,implement:[3,4,5,14],import_data:[5,13],import_sampled_cim:5,import_structur:5,import_trajectori:5,import_vari:[5,13],improv:[2,3],includ:[2,5],independ:2,independence_test:2,index:[2,4,5,13,14],indic:[2,4],indx:5,info:[4,13],inform:[3,4,5],init:13,initi:[2,4,5,13],inplac:13,insid:13,instal:14,instanti:4,interest:4,interfac:3,intes:4,isn:4,item:4,iter:[2,3],iterations_numb:[2,3],its:[2,3],join:13,json:[2,5,13],json_export:[0,1,14],json_import:[0,1,14],jsonarrai:5,jsonexport:5,jsonimport:[5,13],just:4,keep:[2,3,5],kei:[4,5],kind:2,knowledg:2,known:2,known_edg:2,label:[2,3,4,5],last:4,latest:13,lenght:[2,3],level:[2,5],likelihood:2,list:[2,3,4,5,13],list_of_column:4,list_of_edg:4,list_of_nod:4,load:5,loop:2,m_xu_suff_stat:2,m_xxu_suff_stat:2,made:4,main:13,mandatori:4,margin:2,marginal_likelihood_q:2,marginal_likelihood_theta:2,mask:[4,9],mask_arr:4,matric:[2,4],matrix:[2,4,5,9,13],max_par:[2,3],max_tr:4,max_val:4,maximum:[2,3,4],member:[4,5],mention:4,merg:5,method:[2,4,5,7,8,9,10],methodnam:[7,8,9,10],min_val:4,minimum:4,model:2,modul:[14,15],more:5,multi_trajectori:4,multipl:5,multiprocess:2,must:[4,5],name:[2,4,5,13],ndarrai:[2,4,5],necessari:[2,4,5],nest:5,net:[2,3,4,5,13],net_graph:2,network:[2,4,5],network_gener:[0,1,14],network_graph:[0,1,2,14],networkgener:4,networkgraph:[2,4,13],networkx:2,node:[2,3,4,5,9,13],node_id:[2,3,4,9],node_index:4,node_indx:[2,4],node_st:[4,9],node_states_numb:[4,9],nodes_index:4,nodes_indexes_arr:4,nodes_label:4,nodes_labels_list:4,nodes_numb:4,nodes_vals_arr:4,nodes_valu:[4,13],none:[2,3,4,5,7,9,10,13],normal:5,normalize_trajectori:5,number:[2,3,4],numpi:[2,4,5,9],obj:[10,13],object:[2,3,4,5,13],obvious:4,one:[4,5],one_iteration_of_ctpc_algorithm:2,one_level_norm:5,onli:5,oper:2,optim:[0,1,2,6,14],optimize_structur:3,option:[2,3],order:[2,4,5,10],origin:5,original_cols_numb:4,otherwis:[2,4,5],out:5,out_fil:5,outer:[5,13],output:[4,5],over:2,own:14,p_comb:[4,9],p_indx:[4,9],p_val:9,p_valu:9,packag:[14,15],page:14,panda:[4,5,13],parallel:4,param:4,paramet:[2,3,4,5,9,14],parameters_estim:[0,1,14],parametersestim:[2,13],parent:[2,3,4,5],parent_indx:2,parent_label:2,parent_set:2,parent_set_v:2,parent_v:2,parent_valu:9,parents_cardin:4,parents_comb:5,parents_index:4,parents_indx:9,parents_label:[4,9],parents_states_numb:[4,9],parents_v:[4,9],parents_valu:[4,9],part:[2,4],particular:[2,5],pass:13,path:[2,5,13],patienc:[2,3],peest:13,perform:2,pip:13,place:5,plot:2,png:2,posit:[4,5],possibl:[2,4],predict:3,prepar:5,present:[2,5],previous:5,print:13,prior:[2,13],prior_net_structur:5,privat:4,probabl:4,process:[2,3,4,5],processes_numb:2,properli:5,properti:[4,5],provid:[4,5],put:5,pyctbn:13,q_xx:4,rappres:4,raw:5,raw_data:5,reach:4,read:[5,13],read_csv:13,read_csv_fil:13,read_fil:13,read_json_fil:5,real:[2,4,5,13],refer:[4,5],reject:2,rel:4,relat:[4,5],releas:13,remain:5,remov:[2,4,5],remove_edg:4,remove_nod:4,repres:4,represent:2,requir:4,res:4,resid:[2,4],respect:4,result:[2,4,5,13],row:4,rtype:4,rule:[2,3],run:[7,8,9,10],runtest:[7,8,9,10],same:[4,5],sampl:[4,5,13],sample_fram:[5,13],sample_import:[0,1,14],sample_path:[0,1,2,14],sampled_cim:7,sampleimport:5,samplepath:[2,4,13],samples_label:5,save:[2,5,13],save_plot_estimated_structure_graph:2,save_result:[2,13],scalar_index:2,scalar_indexes_struct:2,score:2,se1:13,search:[2,3,14],second:2,see:5,select:13,self:[2,5,13],sep:2,sep_set:2,set:[2,4,5,7,8,9,10],set_of_cim:[0,1,2,5,14],setofcim:[2,4,5,13],setup:15,setupclass:[7,8,9,10],share:4,shift:[4,5],shifted_cols_head:5,show:2,signific:2,simbol:5,simpl:13,simpli:13,sinc:4,singl:4,single_cim_xu_marginal_likelihood_q:2,single_cim_xu_marginal_likelihood_theta:2,single_internal_cim_xxu_marginal_likelihood_theta:2,size:[2,4],socim:5,sofc1:13,sorter:5,specif:[2,4,13],specifi:4,spuriou:2,spurious_edg:2,start:5,state:[2,4],state_res_tim:4,state_residence_tim:4,state_transition_matrix:4,statist:2,stop:[2,3],str:[2,3,4,5,13],string:[2,3,4,5],structur:[0,1,2,3,5,9,14],structure_constraint_based_estim:[0,1,14],structure_estim:[0,1,3,14],structure_estimation_exampl:13,structure_graph:[0,1,2,5,6,14],structure_label:5,structure_score_based_estim:[0,1,14],structureconstraintbasedestim:2,structureestim:[2,3,13],structurescorebasedestim:2,structut:4,style:2,submodul:[1,6,14,15],subpackag:[14,15],subsequ:5,subset:2,suffici:2,suffuci:2,symbol:[4,5],synthet:5,t_end:4,t_xu_suff_stat:2,tabu:[2,3],tabu_length:[2,3],tabu_rules_dur:[2,3],tabu_search:[0,1,14],tabusearch:3,take:[4,13],taken:4,tar:13,task:[2,4],tau_xu:2,ternari:13,test:[0,2,15],test_add_edg:9,test_add_nod:9,test_adjacency_matrix:7,test_buid_samplepath_no_concatenated_sampl:9,test_buid_samplepath_no_vari:9,test_build_cim:9,test_build_complete_graph:7,test_build_p_combs_structur:9,test_build_removable_edges_matrix:7,test_build_saplepath_no_prior_net_structur:9,test_build_sort:10,test_build_structur:9,test_build_structure_bad_sort:9,test_build_time_columns_filtering_structure_for_a_nod:9,test_build_time_scalar_indexing_structure_for_a_nod:9,test_build_trajectori:9,test_build_transition_columns_filtering_structur:9,test_build_transition_scalar_indexing_structure_for_a_nod:9,test_cach:[0,6],test_child:2,test_cim:[0,6],test_clear:10,test_clear_concatenated_fram:10,test_clear_data_frame_list:10,test_compute_cim_coeffici:9,test_compute_parameters_for_nod:7,test_compute_row_delta_in_all_fram:10,test_compute_row_delta_in_all_frames_not_init_sort:10,test_compute_row_delta_single_samples_fram:10,test_dataset_id:10,test_edges_oper:9,test_equ:9,test_fast_init:[7,9],test_file_path:10,test_filter_cims_with_mask:9,test_find:10,test_generate_cim:9,test_generate_graph:9,test_generate_possible_sub_sets_of_s:7,test_generated_trajectori:9,test_generated_trajectory_max_tr:9,test_get_node_id:9,test_get_node_indx:9,test_get_ordered_by_indx_set_of_par:9,test_get_parents_by_id:9,test_get_positional_node_indx:9,test_get_states_numb:9,test_hill_climbing_search:[0,6],test_import_data:10,test_import_sampled_cim:10,test_import_structur:10,test_import_vari:10,test_init:[7,9,10],test_init_not_filled_dataframs:9,test_init_not_initialized_import:9,test_json_import:[0,6],test_multi_trajectori:9,test_networkgener:[0,6],test_networkgraph:[0,6],test_normalize_trajectori:10,test_normalize_trajectories_wrong_indx:10,test_normalize_trajectories_wrong_kei:10,test_ord:10,test_par:2,test_parameters_estim:[0,6],test_put:10,test_read_json_file_found:10,test_read_json_file_not_found:10,test_repr:9,test_sample_import:[0,6],test_sample_path:[0,6],test_save_plot_estimated_graph:7,test_save_result:7,test_setofcim:[0,6],test_structur:[0,6,8],test_structure_1:7,test_structure_2:7,test_structure_3:[7,8],test_structure_constraint_based_estim:[0,6],test_structure_estim:[0,6],test_structure_monoprocesso:7,test_structure_score_based_estim:[0,6],test_tabu_search:[0,6],test_tim:7,test_trajectori:[0,6],test_trajectorygener:[0,6],testcach:10,testcas:[7,8,9,10],testconditionalintensitymatrix:9,testhillclimbingsearch:8,testjsonimport:10,testnetworkgener:9,testnetworkgraph:9,testparametersestimatior:7,testsampleimport:10,testsamplepath:9,testsetofcim:9,teststructur:9,teststructureconstraintbasedestim:7,teststructureestim:7,teststructurescorebasedestim:7,testtabusearch:8,testtrajectori:9,testtrajectorygener:9,tha:5,therefor:4,theta:2,thi:[2,4,5,13],three:13,threshold:2,thumb:2,thumb_threshold:2,thumb_valu:2,time:[2,4,5,13],time_filt:4,time_kei:5,time_scalar_indexing_strucur:4,timestamp:5,to_nod:5,tot_vars_count:[2,3],total:[2,4],total_variables_count:4,total_variables_numb:4,traj:5,trajecory_head:5,trajectori:[0,1,2,5,13,14],trajectories_kei:5,trajectory_gener:[0,1,14],trajectory_list:5,trajectorygener:4,trajectri:13,transit:[2,4,5],transition_filt:4,transition_matric:4,transition_scalar_indexing_structur:4,tri:5,tupl:4,tutori:5,two:[2,4],type:[2,3,4,5,13],union:5,uniqu:5,unittest:[7,8,9,10],unus:4,usag:14,use:[2,13],used:[2,3,4,5],using:[2,3,4,5],util:[0,1,4,6,14],val:4,valid:2,valu:[2,3,4,5,9,13],values_list:13,var_id:2,variabl:[2,3,4,5,13],variable_cardin:5,variable_cim_xu_marginal_likelihood_q:2,variable_cim_xu_marginal_likelihood_theta:2,variable_label:5,variables_kei:5,variables_label:5,vector:[2,4],want:13,when:[2,4],where:[4,5],whether:4,which:[2,3,4,5],whl:13,who:2,without:[2,3],worker:4,write:5,you:[2,5,13],your:14},titles:["PyCTBN package","pyctbn.legacy package","pyctbn.legacy.estimators package","pyctbn.legacy.optimizers package","pyctbn.legacy.structure_graph package","pyctbn.legacy.utility package","PyCTBN.tests package","PyCTBN.tests.estimators package","PyCTBN.tests.optimizers package","PyCTBN.tests.structure_graph package","PyCTBN.tests.utility package","basic_main module","example module","Examples","Welcome to PyCTBN\u2019s documentation!","PyCTBN","setup module"],titleterms:{"import":13,abstract_export:5,abstract_import:5,basic_main:[0,11],cach:5,conditional_intensity_matrix:4,constraint_based_optim:3,content:[0,1,2,3,4,5,6,7,8,9,10],data:13,document:14,estim:[2,7,13],exampl:[12,13],fam_score_calcul:2,hill_climbing_search:3,implement:13,indic:14,instal:13,json_export:5,json_import:5,modul:[0,1,2,3,4,5,6,7,8,9,10,11,12,16],network_gener:4,network_graph:4,optim:[3,8],own:13,packag:[0,1,2,3,4,5,6,7,8,9,10],paramet:13,parameters_estim:2,pyctbn:[0,1,2,3,4,5,6,7,8,9,10,14,15],sample_import:5,sample_path:4,set_of_cim:4,setup:[0,16],structur:[4,13],structure_constraint_based_estim:2,structure_estim:2,structure_graph:[4,9],structure_score_based_estim:2,submodul:[0,2,3,4,5,7,8,9,10],subpackag:[0,1,6],tabl:14,tabu_search:3,test:[6,7,8,9,10],test_cach:10,test_cim:9,test_hill_climbing_search:8,test_json_import:10,test_networkgener:9,test_networkgraph:9,test_parameters_estim:7,test_sample_import:10,test_sample_path:9,test_setofcim:9,test_structur:9,test_structure_constraint_based_estim:7,test_structure_estim:7,test_structure_score_based_estim:7,test_tabu_search:8,test_trajectori:9,test_trajectorygener:9,trajectori:4,trajectory_gener:4,usag:13,util:[5,10],welcom:14,your:13}}) |