Index

A

accessibility_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) actual (py3plex.compat.exceptions.SchemaError attribute) add_bipartite_block() (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank method) add_dummy_layers() (py3plex.core.multinet.multi_layer_network method) add_edges() (py3plex.core.multinet.multi_layer_network method) add_label() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) add_mpx_edges() (in module py3plex.core.supporting) add_multiplex() (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank method) add_nodes() (py3plex.core.multinet.multi_layer_network method) add_sub_class() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) ADJUST (py3plex.algorithms.hedwig.core.settings.Defaults attribute) adjustSpeedAndApplyForces() (in module py3plex.visualization.fa2.fa2util) aggregate_edges() (py3plex.core.multinet.multi_layer_network method) aggregate_layers() (in module py3plex.multinet.aggregation) aggregate_scores() (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank method)

aggregate_sum() (in module py3plex.core.HINMINE.decomposition) aggregate_to_node_level() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) aggregate_weighted_sum() (in module py3plex.core.HINMINE.decomposition) algebraic_connectivity() (in module py3plex.algorithms.statistics.multilayer_statistics) AlgorithmError ALPHA (py3plex.algorithms.hedwig.core.settings.Defaults attribute) apply_attraction() (in module py3plex.visualization.fa2.fa2util) apply_gravity() (in module py3plex.visualization.fa2.fa2util) apply_repulsion() (in module py3plex.visualization.fa2.fa2util) applyForce() (py3plex.visualization.fa2.fa2util.Region method) applyForceOnNodes() (py3plex.visualization.fa2.fa2util.Region method) assign_partition() (py3plex.core.multinet.multi_layer_network method) attrs (py3plex.compat.EdgeTable attribute), [1] (py3plex.compat.NodeTable attribute), [1] authority_matrix() (in module py3plex.algorithms.node_ranking) (in module py3plex.algorithms.node_ranking.node_ranking)

B

basic_pl_stats() (in module py3plex.algorithms.statistics.topology) basic_random_walk() (in module py3plex.algorithms.general.walkers) basic_stats() (py3plex.core.multinet.multi_layer_network method) BEAM_SIZE (py3plex.algorithms.hedwig.core.settings.Defaults attribute) benchmark() (in module py3plex.profiling) benchmark_classification() (in module py3plex.algorithms.network_classification) benchmark_node_classification() (in module py3plex.wrappers.benchmark_nodes) BenchmarkError best_partition() (in module py3plex.algorithms.community_detection.community_louvain) bezier_calculate_dfy() (in module py3plex.visualization.bezier) BinaryPredicate (class in py3plex.algorithms.hedwig.core.predicate)

bipartite_blocks (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute) bits_to_indices() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) bottom_clause() (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner method) BottomUpLearner (class in py3plex.algorithms.hedwig.learners.bottomup) bridging_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) build_graph() (in module py3plex.algorithms.hedwig) build_occurrence_matrix() (in module py3plex.algorithms.multilayer_algorithms.entanglement) build_supra_heterogeneous_matrix() (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank method) build_supra_modularity_matrix() (in module py3plex.algorithms.community_detection.multilayer_modularity) buildSubRegions() (py3plex.visualization.fa2.fa2util.Region method) built-in function discover_plugins()

C

calculate_decomposition_candidates() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) calculate_importance_chi() (in module py3plex.core.HINMINE.decomposition) calculate_importance_delta() (in module py3plex.core.HINMINE.decomposition) calculate_importance_gr() (in module py3plex.core.HINMINE.decomposition) calculate_importance_idf() (in module py3plex.core.HINMINE.decomposition) calculate_importance_ig() (in module py3plex.core.HINMINE.decomposition) calculate_importance_okapi() (in module py3plex.core.HINMINE.decomposition) calculate_importance_rf() (in module py3plex.core.HINMINE.decomposition) calculate_importance_tf() (in module py3plex.core.HINMINE.decomposition) calculate_importance_w2w() (in module py3plex.core.HINMINE.decomposition) calculate_importances() (in module py3plex.core.HINMINE.decomposition) calculate_pval() (in module py3plex.algorithms.statistics.enrichment_modules) calculate_schema() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) call_node2vec_binary() (in module py3plex.wrappers.train_node2vec_embedding) can_specialize() (py3plex.algorithms.hedwig.learners.learner.Learner method) capabilities() (py3plex.core.multinet.multi_layer_network method) CentralityComputationError chi_value() (in module py3plex.core.HINMINE.decomposition) chisq() (in module py3plex.algorithms.hedwig.stats.scorefunctions) Class (class in py3plex.core.HINMINE.dataStructures) ClassLabeled (py3plex.algorithms.hedwig.core.example.Example attribute) clear() (py3plex.profiling.PerformanceMonitor method) clone() (py3plex.algorithms.hedwig.core.rule.Rule method) clone_append() (py3plex.algorithms.hedwig.core.rule.Rule method) clone_negate() (py3plex.algorithms.hedwig.core.rule.Rule method) clone_swap_with_subclass() (py3plex.algorithms.hedwig.core.rule.Rule method) cmd_aggregate() (in module py3plex.cli) cmd_capabilities() (in module py3plex.cli) cmd_centrality() (in module py3plex.cli) cmd_check() (in module py3plex.cli) cmd_community() (in module py3plex.cli) cmd_convert() (in module py3plex.cli) cmd_create() (in module py3plex.cli) cmd_dsl_lint() (in module py3plex.cli) cmd_dynamics() (in module py3plex.cli) cmd_embed() (in module py3plex.cli) cmd_help() (in module py3plex.cli) cmd_load() (in module py3plex.cli) cmd_query() (in module py3plex.cli) cmd_quickstart() (in module py3plex.cli) cmd_run_config() (in module py3plex.cli) cmd_selftest() (in module py3plex.cli)

cmd_stats() (in module py3plex.cli) cmd_tutorial() (in module py3plex.cli) cmd_visualize() (in module py3plex.cli) code (py3plex.exceptions.Py3plexException attribute) collective_influence() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) color_dict() (in module py3plex.visualization.colors) column_normalize() (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank method) communicability_betweenness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) communicability_centrality() (in module py3plex.algorithms.multilayer_algorithms.centrality) (in module py3plex.algorithms.multilayer_algorithms.supra_matrix_function_centrality) community_participation_coefficient() (in module py3plex.algorithms.statistics.multilayer_statistics) community_participation_entropy() (in module py3plex.algorithms.statistics.multilayer_statistics) CommunityDetectionError CompatibilityError compute_all_centralities() (in module py3plex.algorithms.multilayer_algorithms.centrality) compute_blocks() (in module py3plex.algorithms.multilayer_algorithms.entanglement) compute_enrichment() (in module py3plex.algorithms.statistics.enrichment_modules) compute_entanglement() (in module py3plex.algorithms.multilayer_algorithms.entanglement) compute_entanglement_analysis() (in module py3plex.algorithms.multilayer_algorithms.entanglement) compute_force_directed_layout() (in module py3plex.visualization.layout_algorithms) compute_layout() (in module py3plex.core.converters) compute_modularity_score() (in module py3plex.algorithms.statistics.multilayer_statistics) compute_ollivier_ricci() (py3plex.core.multinet.multi_layer_network method) compute_ollivier_ricci_flow() (py3plex.core.multinet.multi_layer_network method) compute_random_layout() (in module py3plex.visualization.layout_algorithms) ConversionError ConversionNotSupportedError convert() (in module py3plex.compat) convert_mapping_to_rdf() (in module py3plex.algorithms.hedwig.core.converters) copy() (py3plex.algorithms.community_detection.community_louvain.Status method) core_network_statistics() (in module py3plex.algorithms.statistics.basic_statistics) correlated_ttest() (in module py3plex.algorithms.statistics.bayesiantests) correlated_ttest_MC() (in module py3plex.algorithms.statistics.bayesiantests) COVERED (py3plex.algorithms.hedwig.core.settings.Defaults attribute) create_label_matrix() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) create_parser() (in module py3plex.cli) create_tree() (in module py3plex.algorithms.community_detection.community_ranking) created_by (py3plex.compat.GraphMeta attribute), [1] cross_layer_mutual_information() (in module py3plex.algorithms.statistics.multilayer_statistics) cross_layer_redundancy_entropy() (in module py3plex.algorithms.statistics.multilayer_statistics) current_flow_betweenness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) current_flow_closeness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method)

D

damping_hyper (in module py3plex.algorithms.node_ranking) decompose_from_iterator() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) DecompositionError Default (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner attribute) (py3plex.algorithms.hedwig.learners.learner.Learner attribute) default_code (py3plex.exceptions.AlgorithmError attribute) (py3plex.exceptions.BenchmarkError attribute) (py3plex.exceptions.CentralityComputationError attribute) (py3plex.exceptions.CommunityDetectionError attribute) (py3plex.exceptions.ConversionError attribute) (py3plex.exceptions.DecompositionError attribute) (py3plex.exceptions.EmbeddingError attribute) (py3plex.exceptions.ExternalToolError attribute) (py3plex.exceptions.IncompatibleNetworkError attribute) (py3plex.exceptions.InvalidEdgeError attribute) (py3plex.exceptions.InvalidLayerError attribute) (py3plex.exceptions.InvalidNodeError attribute) (py3plex.exceptions.MetaAnalysisError attribute) (py3plex.exceptions.NetworkConstructionError attribute) (py3plex.exceptions.ParsingError attribute) (py3plex.exceptions.Py3plexException attribute) (py3plex.exceptions.Py3plexFormatError attribute) (py3plex.exceptions.Py3plexIOError attribute) (py3plex.exceptions.Py3plexLayoutError attribute) (py3plex.exceptions.Py3plexMatrixError attribute) (py3plex.exceptions.SemiringError attribute) (py3plex.exceptions.SemiringExecutionError attribute) (py3plex.exceptions.SemiringValidationError attribute) (py3plex.exceptions.VisualizationError attribute) default_correlation_to_network() (in module py3plex.algorithms.statistics.correlation_networks)

Defaults (class in py3plex.algorithms.hedwig.core.settings) degree_vector() (in module py3plex.algorithms.statistics.multilayer_statistics) degrees (py3plex.algorithms.community_detection.community_louvain.Status attribute) deprecated() (in module py3plex.utils) DEPTH (py3plex.algorithms.hedwig.core.settings.Defaults attribute) did_you_mean (py3plex.exceptions.Py3plexException attribute) directed (py3plex.compat.GraphMeta attribute), [1] (py3plex.compat.GraphSchema attribute), [1] discover_plugins() built-in function display() (py3plex.visualization.fa2.forceatlas2.Timer method) draw() (in module py3plex.visualization.drawing_machinery) draw_bezier() (in module py3plex.visualization.bezier) draw_circular() (in module py3plex.visualization.drawing_machinery) draw_kamada_kawai() (in module py3plex.visualization.drawing_machinery) draw_multiedges() (in module py3plex.visualization.multilayer) draw_multilayer_default() (in module py3plex.visualization.multilayer) draw_multilayer_flow() (in module py3plex.visualization.multilayer) draw_multilayer_sankey() (in module py3plex.visualization.sankey) draw_networkx() (in module py3plex.visualization.drawing_machinery) draw_networkx_edge_labels() (in module py3plex.visualization.drawing_machinery) draw_networkx_edges() (in module py3plex.visualization.drawing_machinery) draw_networkx_labels() (in module py3plex.visualization.drawing_machinery) draw_networkx_nodes() (in module py3plex.visualization.drawing_machinery) draw_random() (in module py3plex.visualization.drawing_machinery) draw_shell() (in module py3plex.visualization.drawing_machinery) draw_spectral() (in module py3plex.visualization.drawing_machinery) draw_spring() (in module py3plex.visualization.drawing_machinery) dst (py3plex.compat.EdgeTable attribute), [1] dst_layer (py3plex.compat.EdgeTable attribute), [1]

E

Edge (class in py3plex.visualization.fa2.fa2util) edge_attr_types (py3plex.compat.GraphSchema attribute), [1] edge_betweenness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) edge_count (py3plex.core.multinet.multi_layer_network property) edge_id (py3plex.compat.EdgeTable attribute), [1] edge_id_required (py3plex.compat.GraphSchema attribute), [1] edge_order (py3plex.compat.EdgeTable attribute), [1] edge_overlap() (in module py3plex.algorithms.statistics.multilayer_statistics) edges (py3plex.compat.GraphIR attribute), [1] edges_from_temporal_table() (py3plex.core.multinet.multi_layer_network method) EdgeTable (class in py3plex.compat) embed() (py3plex.core.multinet.multi_layer_network method) EmbeddingError enabled (py3plex.profiling.PerformanceMonitor attribute) enrichment_score() (in module py3plex.algorithms.hedwig.stats.scorefunctions) ensure() (in module py3plex.algorithms.multicentrality) (in module py3plex.algorithms.statistics.basic_statistics) (in module py3plex.core.converters) (in module py3plex.core.multinet) (in module py3plex.core.nx_compat) (in module py3plex.core.parsers) (in module py3plex.core.supporting) (in module py3plex.io.api) (in module py3plex.multinet.aggregation) (in module py3plex.utils) (in module py3plex.visualization.layout_algorithms)

entropy_of_multiplexity() (in module py3plex.algorithms.statistics.multilayer_statistics) epsilon (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute) evaluate_oracle_F1() (in module py3plex.algorithms.general.benchmark_classification) Example (class in py3plex.algorithms.hedwig.core.example) examples() (py3plex.algorithms.hedwig.core.rule.Rule method) execute_query() (py3plex.core.multinet.multi_layer_network method) expected (py3plex.compat.exceptions.SchemaError attribute) ExperimentKB (class in py3plex.algorithms.hedwig.core.kb) export_sidecar() (in module py3plex.compat.sidecar) extend() (py3plex.algorithms.hedwig.learners.learner.Learner method) extend_replace_worst() (py3plex.algorithms.hedwig.learners.learner.Learner method) extend_with_similarity() (py3plex.algorithms.hedwig.learners.learner.Learner method) ExternalToolError

F

FDR_Q (py3plex.algorithms.hedwig.core.settings.Defaults attribute) fet_enrichment_generic() (in module py3plex.algorithms.statistics.enrichment_modules) fet_enrichment_terms() (in module py3plex.algorithms.statistics.enrichment_modules) fet_enrichment_uniprot() (in module py3plex.algorithms.statistics.enrichment_modules) field (py3plex.compat.exceptions.SchemaError attribute) fill_tmp_with_edges() (py3plex.core.multinet.multi_layer_network method) flatten_to_monoplex() (py3plex.core.multinet.multi_layer_network method) flow_betweenness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) ForceAtlas2 (class in py3plex.visualization.fa2.forceatlas2) forceatlas2() (py3plex.visualization.fa2.forceatlas2.ForceAtlas2 method) forceatlas2_igraph_layout() (py3plex.visualization.fa2.forceatlas2.ForceAtlas2 method) forceatlas2_networkx_layout() (py3plex.visualization.fa2.forceatlas2.ForceAtlas2 method) FORMAT (py3plex.algorithms.hedwig.core.settings.Defaults attribute)

format_message() (py3plex.exceptions.Py3plexException method) from_dict() (py3plex.compat.EdgeTable class method) (py3plex.compat.GraphIR class method) (py3plex.compat.GraphMeta class method) (py3plex.compat.GraphSchema class method) (py3plex.compat.NodeTable class method) from_edges() (py3plex.core.multinet.multi_layer_network class method) from_homogeneous_hypergraph() (py3plex.core.multinet.multi_layer_network method) from_igraph_to_ir() (in module py3plex.compat.converters.igraph_converter) from_ir() (in module py3plex.compat) from_networkx() (py3plex.core.multinet.multi_layer_network class method) from_networkx_to_ir() (in module py3plex.compat.converters.networkx_converter) from_scipy_sparse_to_ir() (in module py3plex.compat.converters.scipy_converter)

G

gdegrees (py3plex.algorithms.community_detection.community_louvain.Status attribute) general_random_walk() (in module py3plex.algorithms.general.walkers) generate_coupled_er_multilayer() (in module py3plex.algorithms.community_detection.multilayer_benchmark) generate_dendrogram() (in module py3plex.algorithms.community_detection.community_louvain) generate_multilayer_lfr() (in module py3plex.algorithms.community_detection.multilayer_benchmark) generate_random_multiedges() (in module py3plex.visualization.multilayer) generate_random_networks() (in module py3plex.visualization.multilayer) generate_rules_report() (in module py3plex.algorithms.hedwig) generate_sbm_multilayer() (in module py3plex.algorithms.community_detection.multilayer_benchmark) generate_walks() (in module py3plex.algorithms.general.walkers) generic_grouping() (in module py3plex.visualization.benchmark_visualizations) get() (PluginRegistry method) get_aggregation_method() (in module py3plex.core.HINMINE.decomposition) get_calculation_method() (in module py3plex.core.HINMINE.decomposition) get_color_palette() (in module py3plex.config) get_data_path() (in module py3plex.utils) get_dataset_path() (in module py3plex.utils) get_decomposition() (py3plex.core.multinet.multi_layer_network method) get_decomposition_cycles() (py3plex.core.multinet.multi_layer_network method) get_degrees() (py3plex.core.multinet.multi_layer_network method) get_domains() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_edges() (py3plex.core.multinet.multi_layer_network method) get_empty_domain() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_example_image_path() (in module py3plex.utils) get_examples() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_full_domain() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_label_matrix() (py3plex.core.multinet.multi_layer_network method) get_layer_names() (in module py3plex.utils) get_layers() (py3plex.core.multinet.multi_layer_network method) get_logger() (in module py3plex.logging_config)

get_members() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_monitor() (in module py3plex.profiling) get_multilayer_dataset_path() (in module py3plex.utils) get_neighbors() (py3plex.core.multinet.multi_layer_network method) get_node_attribute() (py3plex.core.multinet.multi_layer_network method) get_nodes() (py3plex.core.multinet.multi_layer_network method) get_nx_object() (py3plex.core.multinet.multi_layer_network method) get_partition() (py3plex.core.multinet.multi_layer_network method) get_partition_by_name() (py3plex.core.multinet.multi_layer_network method) get_plugin_info() (PluginRegistry method) get_report() (py3plex.profiling.PerformanceMonitor method) get_reverse_members() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_rng() (in module py3plex.utils) get_root() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_score() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) get_subclasses() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner method) (py3plex.algorithms.hedwig.learners.learner.Learner method) get_superclasses() (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner method) (py3plex.algorithms.hedwig.learners.learner.Learner method) get_supra_adjacency_matrix() (py3plex.core.multinet.multi_layer_network method) get_tensor() (py3plex.core.multinet.multi_layer_network method) get_top_ranked() (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank method) get_unique_entity_counts() (py3plex.core.multinet.multi_layer_network method) global_attrs (py3plex.compat.GraphMeta attribute), [1] gr_value() (in module py3plex.core.HINMINE.decomposition) GraphIR (class in py3plex.compat) GraphMeta (class in py3plex.compat) GraphSchema (class in py3plex.compat) group_score() (py3plex.algorithms.hedwig.learners.learner.Learner method)

H

hairball_plot() (in module py3plex.visualization.multilayer) harmonic_closeness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) has_layers (py3plex.compat.GraphSchema attribute), [1] heaviside() (in module py3plex.algorithms.statistics.bayesiantests) HeterogeneousInformationNetwork (class in py3plex.core.HINMINE.dataStructures) hex_to_RGB() (in module py3plex.visualization.colors) hierarchical() (in module py3plex.algorithms.statistics.bayesiantests)

hierarchical_MC() (in module py3plex.algorithms.statistics.bayesiantests) hinmine_decompose() (in module py3plex.core.HINMINE.decomposition) hinmine_get_cycles() (in module py3plex.core.HINMINE.decomposition) hits_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) hub_matrix() (in module py3plex.algorithms.node_ranking) (in module py3plex.algorithms.node_ranking.node_ranking) hubs_and_authorities() (in module py3plex.algorithms.node_ranking) (in module py3plex.algorithms.node_ranking.node_ranking)

I

i (py3plex.algorithms.hedwig.core.predicate.Predicate attribute) identify_n_hubs() (in module py3plex.algorithms.statistics.basic_statistics) ig_value() (in module py3plex.core.HINMINE.decomposition) import_sidecar() (in module py3plex.compat.sidecar) Improvement (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner attribute) (py3plex.algorithms.hedwig.learners.learner.Learner attribute) IncompatibleNetworkError indices_to_bits() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) induce() (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner method) (py3plex.algorithms.hedwig.learners.learner.Learner method) (py3plex.algorithms.hedwig.learners.optimal.OptimalLearner method) induced_graph() (in module py3plex.algorithms.community_detection.community_louvain) infer_schema() (in module py3plex.compat) infomap_communities() (in module py3plex.algorithms.community_detection.community_wrapper) information_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) init() (py3plex.algorithms.community_detection.community_louvain.Status method) (py3plex.visualization.fa2.forceatlas2.ForceAtlas2 method) inter_layer_assortativity() (in module py3plex.algorithms.statistics.multilayer_statistics) inter_layer_coupling_strength() (in module py3plex.algorithms.statistics.multilayer_statistics)

inter_layer_degree_correlation() (in module py3plex.algorithms.statistics.multilayer_statistics) inter_layer_dependence_entropy() (in module py3plex.algorithms.statistics.multilayer_statistics) interactive_diagonal_plot() (in module py3plex.visualization.multilayer) interactive_hairball_plot() (in module py3plex.visualization.multilayer) interdependence() (in module py3plex.algorithms.statistics.multilayer_statistics) interesting() (in module py3plex.algorithms.hedwig.stats.scorefunctions) interlayer_degree_correlation_matrix() (in module py3plex.algorithms.statistics.multilayer_statistics) internals (py3plex.algorithms.community_detection.community_louvain.Status attribute) InvalidEdgeError InvalidLayerError InvalidNodeError invariant() (in module py3plex.core.multinet) invert() (py3plex.core.multinet.multi_layer_network method) ir_diff() (in module py3plex.compat) ir_equals() (in module py3plex.compat) is_discrete_target() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) is_empty (py3plex.core.multinet.multi_layer_network property) is_implicit_root() (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner method) (py3plex.algorithms.hedwig.learners.learner.Learner method) is_string_like() (in module py3plex.core.nx_compat)

K

kaplan_meier_AUC() (in module py3plex.algorithms.hedwig.stats.scorefunctions) katz_bonacich_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method)

katz_centrality() (in module py3plex.algorithms.multilayer_algorithms.centrality) (in module py3plex.algorithms.multilayer_algorithms.supra_matrix_function_centrality) key (py3plex.compat.EdgeTable attribute), [1]

L

label_propagation() (in module py3plex.algorithms.network_classification) label_propagation_normalization() (in module py3plex.algorithms.network_classification) label_propagation_tf() (in module py3plex.algorithms.network_classification) layer (py3plex.compat.NodeTable attribute), [1] layer_connectivity_entropy() (in module py3plex.algorithms.statistics.multilayer_statistics) layer_count (py3plex.compat.GraphSchema attribute), [1] (py3plex.core.multinet.multi_layer_network property) layer_degree_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) layer_density() (in module py3plex.algorithms.statistics.multilayer_statistics) layer_influence_centrality() (in module py3plex.algorithms.statistics.multilayer_statistics) layer_names (py3plex.core.multinet.multi_layer_network property) layer_redundancy_coefficient() (in module py3plex.algorithms.statistics.multilayer_statistics) layer_similarity() (in module py3plex.algorithms.statistics.multilayer_statistics) layer_specific_random_walk() (in module py3plex.algorithms.general.walkers) layers (py3plex.compat.GraphMeta attribute), [1] (py3plex.core.multinet.multi_layer_network property) learn_embedding() (in module py3plex.wrappers.train_node2vec_embedding) Learner (class in py3plex.algorithms.hedwig.learners.learner) LEARNER (py3plex.algorithms.hedwig.core.settings.Defaults attribute) LEAVES (py3plex.algorithms.hedwig.core.settings.Defaults attribute) leverage() (in module py3plex.algorithms.hedwig.stats.scorefunctions) lift() (in module py3plex.algorithms.hedwig.stats.scorefunctions)

linAttraction() (in module py3plex.visualization.fa2.fa2util) linear_gradient() (in module py3plex.visualization.colors) linGravity() (in module py3plex.visualization.fa2.fa2util) linRepulsion() (in module py3plex.visualization.fa2.fa2util) linRepulsion_region() (in module py3plex.visualization.fa2.fa2util) list_partitions() (py3plex.core.multinet.multi_layer_network method) list_plugins() (PluginRegistry method) load_binary() (in module py3plex.algorithms.community_detection.community_louvain) load_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) load_edge_activity_file() (in module py3plex.core.parsers) load_edge_activity_raw() (in module py3plex.core.parsers) load_embedding() (py3plex.core.multinet.multi_layer_network method) load_hinmine_object() (in module py3plex.core.HINMINE.IO) load_layer_name_mapping() (py3plex.core.multinet.multi_layer_network method) load_network() (py3plex.core.multinet.multi_layer_network method) load_network_activity() (py3plex.core.multinet.multi_layer_network method) load_temporal_edge_information() (in module py3plex.core.parsers) (py3plex.core.multinet.multi_layer_network method) local_efficiency_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) louvain_communities() (in module py3plex.algorithms.community_detection.community_wrapper) louvain_multilayer() (in module py3plex.algorithms.community_detection.multilayer_modularity) lp_aggregated_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method)

M

main() (in module py3plex.cli) (in module py3plex.wrappers.benchmark_nodes) max_iter (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute) merge_with() (py3plex.core.multinet.multi_layer_network method) message (py3plex.compat.exceptions.CompatibilityError attribute) (py3plex.compat.exceptions.SchemaError attribute) meta (py3plex.compat.GraphIR attribute), [1] MetaAnalysisError midpoint_generator() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) MODE (py3plex.algorithms.hedwig.core.settings.Defaults attribute) modularity() (in module py3plex.algorithms.community_detection.community_louvain) (in module py3plex.algorithms.community_detection.community_measures) (in module py3plex.algorithms.node_ranking.node_ranking) module py3plex.algorithms.community_detection.community_louvain py3plex.algorithms.community_detection.community_measures py3plex.algorithms.community_detection.community_ranking py3plex.algorithms.community_detection.community_wrapper py3plex.algorithms.community_detection.label_propagation py3plex.algorithms.community_detection.multilayer_benchmark py3plex.algorithms.community_detection.multilayer_modularity py3plex.algorithms.community_detection.NoRC py3plex.algorithms.general.benchmark_classification py3plex.algorithms.general.walkers py3plex.algorithms.hedwig py3plex.algorithms.hedwig.core.converters py3plex.algorithms.hedwig.core.example py3plex.algorithms.hedwig.core.kb py3plex.algorithms.hedwig.core.predicate py3plex.algorithms.hedwig.core.rule py3plex.algorithms.hedwig.core.settings py3plex.algorithms.hedwig.learners.bottomup py3plex.algorithms.hedwig.learners.learner py3plex.algorithms.hedwig.learners.optimal py3plex.algorithms.hedwig.stats.scorefunctions py3plex.algorithms.hedwig.stats.validate py3plex.algorithms.multicentrality py3plex.algorithms.multilayer_algorithms.centrality py3plex.algorithms.multilayer_algorithms.entanglement py3plex.algorithms.multilayer_algorithms.multixrank py3plex.algorithms.network_classification py3plex.algorithms.node_ranking py3plex.algorithms.node_ranking.node_ranking py3plex.algorithms.statistics.basic_statistics py3plex.algorithms.statistics.bayesiantests py3plex.algorithms.statistics.correlation_networks py3plex.algorithms.statistics.enrichment_modules py3plex.algorithms.statistics.multilayer_statistics py3plex.algorithms.statistics.topology py3plex.cli py3plex.compat py3plex.compat.converters.igraph_converter py3plex.compat.converters.networkx_converter py3plex.compat.converters.scipy_converter py3plex.compat.exceptions py3plex.compat.sidecar py3plex.config py3plex.core.converters py3plex.core.HINMINE.dataStructures py3plex.core.HINMINE.decomposition py3plex.core.HINMINE.IO py3plex.core.multinet py3plex.core.nx_compat py3plex.core.parsers py3plex.core.supporting py3plex.exceptions py3plex.io.api py3plex.logging_config py3plex.multinet.aggregation py3plex.profiling py3plex.utils py3plex.validation py3plex.visualization.benchmark_visualizations py3plex.visualization.bezier py3plex.visualization.colors py3plex.visualization.drawing_machinery py3plex.visualization.embedding_visualization.embedding_visualization py3plex.visualization.fa2.fa2util py3plex.visualization.fa2.forceatlas2 py3plex.visualization.layout_algorithms py3plex.visualization.multilayer py3plex.visualization.sankey py3plex.wrappers.benchmark_nodes py3plex.wrappers.train_node2vec_embedding

monitor() (py3plex.core.multinet.multi_layer_network method) monoplex_nx_wrapper() (py3plex.core.multinet.multi_layer_network method) multi (py3plex.compat.GraphMeta attribute), [1] (py3plex.compat.GraphSchema attribute), [1] multi_layer_network (class in py3plex.core.multinet) multilayer_betweenness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) multilayer_betweenness_surface() (in module py3plex.algorithms.statistics.multilayer_statistics) multilayer_closeness_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) multilayer_clustering_coefficient() (in module py3plex.algorithms.statistics.multilayer_statistics) multilayer_label_propagation_supra() (in module py3plex.algorithms.community_detection.label_propagation) multilayer_modularity() (in module py3plex.algorithms.community_detection.multilayer_modularity) (in module py3plex.algorithms.statistics.multilayer_statistics) multilayer_motif_frequency() (in module py3plex.algorithms.statistics.multilayer_statistics) MultilayerCentrality (class in py3plex.algorithms.multilayer_algorithms.centrality) multiple_test_correction() (in module py3plex.algorithms.statistics.enrichment_modules) multiplex_betweenness_centrality() (in module py3plex.algorithms.statistics.multilayer_statistics) multiplex_closeness_centrality() (in module py3plex.algorithms.statistics.multilayer_statistics) multiplex_coreness() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) multiplex_eigenvector_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) multiplex_eigenvector_versatility() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) multiplex_k_core() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) multiplex_label_propagation_consensus() (in module py3plex.algorithms.community_detection.label_propagation) multiplex_participation_coefficient() (in module py3plex.algorithms.multicentrality) multiplex_rich_club_coefficient() (in module py3plex.algorithms.statistics.multilayer_statistics) multiplexes (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute) MultiXRank (class in py3plex.algorithms.multilayer_algorithms.multixrank) multixrank_from_py3plex_networks() (in module py3plex.algorithms.multilayer_algorithms.multixrank)

N

n2v_embedding() (in module py3plex.wrappers.train_node2vec_embedding) n_examples() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) n_members() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) name (py3plex.compat.GraphMeta attribute), [1] NEGATIONS (py3plex.algorithms.hedwig.core.settings.Defaults attribute) network_version (py3plex.core.multinet.multi_layer_network property) NetworkConstructionError NO_CACHE (py3plex.algorithms.hedwig.core.settings.Defaults attribute) Node (class in py3plex.visualization.fa2.fa2util) node2com (py3plex.algorithms.community_detection.community_louvain.Status attribute) node2vec_walk() (in module py3plex.algorithms.general.walkers) node_activity() (in module py3plex.algorithms.statistics.multilayer_statistics) node_attr_types (py3plex.compat.GraphSchema attribute), [1] node_count (py3plex.core.multinet.multi_layer_network property) node_id (py3plex.compat.NodeTable attribute), [1] node_id_type (py3plex.compat.GraphSchema attribute), [1] node_order (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute) (py3plex.compat.NodeTable attribute), [1]

nodes (py3plex.compat.GraphIR attribute), [1] NodeTable (class in py3plex.compat) non_redundant() (py3plex.algorithms.hedwig.learners.learner.Learner method) NoRC_communities() (in module py3plex.algorithms.community_detection.community_wrapper) NoRC_communities_main() (in module py3plex.algorithms.community_detection.NoRC) normalize_amplify_freq() (in module py3plex.algorithms.network_classification) normalize_exp() (in module py3plex.algorithms.network_classification) normalize_initial_matrix_freq() (in module py3plex.algorithms.network_classification) notes (py3plex.exceptions.Py3plexException attribute) np_calculate_importance_chi() (in module py3plex.core.HINMINE.decomposition) np_calculate_importance_tf() (in module py3plex.core.HINMINE.decomposition) number_of_communities() (in module py3plex.algorithms.community_detection.community_measures) nx_from_scipy_sparse_matrix() (in module py3plex.core.nx_compat) nx_info() (in module py3plex.core.nx_compat) nx_read_gpickle() (in module py3plex.core.nx_compat) nx_to_scipy_sparse_matrix() (in module py3plex.core.nx_compat) nx_write_gpickle() (in module py3plex.core.nx_compat)

O

obo2n3() (in module py3plex.algorithms.hedwig.core.converters) onclick() (in module py3plex.visualization.multilayer) OPTIMAL_SUBCLASS (py3plex.algorithms.hedwig.core.settings.Defaults attribute)

OptimalLearner (class in py3plex.algorithms.hedwig.learners.optimal) OUTPUT (py3plex.algorithms.hedwig.core.settings.Defaults attribute) overlapping_degree_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method)

P

page_rank_kernel() (in module py3plex.algorithms.community_detection.community_ranking) (in module py3plex.algorithms.community_detection.NoRC) (in module py3plex.algorithms.node_ranking) pagerank_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) parallel_enrichment() (in module py3plex.algorithms.statistics.enrichment_modules) parse_detangler_json() (in module py3plex.core.parsers) parse_edgelist_multi_types() (in module py3plex.core.parsers) parse_embedding() (in module py3plex.core.parsers) parse_gaf_to_uniprot_GO() (in module py3plex.core.supporting) parse_gml() (in module py3plex.core.parsers) parse_gpickle() (in module py3plex.core.parsers) parse_gpickle_biomine() (in module py3plex.core.parsers) parse_infomap() (in module py3plex.algorithms.community_detection.community_wrapper) parse_matrix() (in module py3plex.core.parsers) parse_matrix_to_nx() (in module py3plex.core.parsers) parse_multi_edgelist() (in module py3plex.core.parsers) parse_multiedge_tuple_list() (in module py3plex.core.parsers) parse_multiplex_edges() (in module py3plex.core.parsers) parse_multiplex_folder() (in module py3plex.core.parsers) parse_network() (in module py3plex.core.parsers) parse_nx() (in module py3plex.core.parsers) parse_simple_edgelist() (in module py3plex.core.parsers) parse_spin_edgelist() (in module py3plex.core.parsers) ParsingError participation_coefficient() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) partition_at_level() (in module py3plex.algorithms.community_detection.community_louvain) percolation_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) percolation_threshold() (in module py3plex.algorithms.statistics.multilayer_statistics) PerformanceMonitor (class in py3plex.profiling) pick_threshold() (in module py3plex.algorithms.statistics.correlation_networks) plot_core_macro() (in module py3plex.visualization.benchmark_visualizations) plot_core_macro_box() (in module py3plex.visualization.benchmark_visualizations) plot_core_macro_gg() (in module py3plex.visualization.benchmark_visualizations) plot_core_micro() (in module py3plex.visualization.benchmark_visualizations) plot_core_micro_gg() (in module py3plex.visualization.benchmark_visualizations) plot_core_micro_grid() (in module py3plex.visualization.benchmark_visualizations) plot_core_time() (in module py3plex.visualization.benchmark_visualizations) plot_core_time_gg() (in module py3plex.visualization.benchmark_visualizations) plot_core_variability() (in module py3plex.visualization.benchmark_visualizations) plot_critical_distance() (in module py3plex.visualization.benchmark_visualizations) plot_edge_colored_projection() (in module py3plex.visualization.multilayer) plot_ego_multilayer() (in module py3plex.visualization.multilayer) plot_mean_times() (in module py3plex.visualization.benchmark_visualizations) plot_posterior() (in module py3plex.algorithms.statistics.bayesiantests) plot_power_law() (in module py3plex.algorithms.statistics.topology) plot_radial_layers() (in module py3plex.visualization.multilayer) plot_robustness() (in module py3plex.visualization.benchmark_visualizations) plot_simplex() (in module py3plex.algorithms.statistics.bayesiantests) plot_small_multiples() (in module py3plex.visualization.multilayer) plot_supra_adjacency_heatmap() (in module py3plex.visualization.multilayer) PluginRegistry (built-in class) positives (py3plex.algorithms.hedwig.core.rule.Rule property) precision() (in module py3plex.algorithms.hedwig.stats.scorefunctions) (py3plex.algorithms.hedwig.core.rule.Rule method) Predicate (class in py3plex.algorithms.hedwig.core.predicate) predict() (py3plex.wrappers.benchmark_nodes.TopKRanker method) prepare_for_parsing() (in module py3plex.core.converters) prepare_for_visualization() (in module py3plex.core.converters) prepare_for_visualization_hairball() (in module py3plex.core.converters) process_network() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) profile_performance() (in module py3plex.profiling) py3plex.algorithms.community_detection.community_louvain module py3plex.algorithms.community_detection.community_measures module py3plex.algorithms.community_detection.community_ranking module py3plex.algorithms.community_detection.community_wrapper module py3plex.algorithms.community_detection.label_propagation module py3plex.algorithms.community_detection.multilayer_benchmark module py3plex.algorithms.community_detection.multilayer_modularity module py3plex.algorithms.community_detection.NoRC module py3plex.algorithms.general.benchmark_classification module py3plex.algorithms.general.walkers module py3plex.algorithms.hedwig module py3plex.algorithms.hedwig.core.converters module py3plex.algorithms.hedwig.core.example module py3plex.algorithms.hedwig.core.kb module py3plex.algorithms.hedwig.core.predicate module py3plex.algorithms.hedwig.core.rule module py3plex.algorithms.hedwig.core.settings module py3plex.algorithms.hedwig.learners.bottomup module py3plex.algorithms.hedwig.learners.learner module py3plex.algorithms.hedwig.learners.optimal module py3plex.algorithms.hedwig.stats.scorefunctions module

py3plex.algorithms.hedwig.stats.validate module py3plex.algorithms.multicentrality module py3plex.algorithms.multilayer_algorithms.centrality module py3plex.algorithms.multilayer_algorithms.entanglement module py3plex.algorithms.multilayer_algorithms.multixrank module py3plex.algorithms.network_classification module py3plex.algorithms.node_ranking module py3plex.algorithms.node_ranking.node_ranking module py3plex.algorithms.statistics.basic_statistics module py3plex.algorithms.statistics.bayesiantests module py3plex.algorithms.statistics.correlation_networks module py3plex.algorithms.statistics.enrichment_modules module py3plex.algorithms.statistics.multilayer_statistics module py3plex.algorithms.statistics.topology module py3plex.cli module py3plex.compat module py3plex.compat.converters.igraph_converter module py3plex.compat.converters.networkx_converter module py3plex.compat.converters.scipy_converter module py3plex.compat.exceptions module py3plex.compat.sidecar module py3plex.config module py3plex.core.converters module py3plex.core.HINMINE.dataStructures module py3plex.core.HINMINE.decomposition module py3plex.core.HINMINE.IO module py3plex.core.multinet module py3plex.core.nx_compat module py3plex.core.parsers module py3plex.core.supporting module py3plex.exceptions module py3plex.io.api module py3plex.logging_config module py3plex.multinet.aggregation module py3plex.profiling module py3plex.utils module py3plex.validation module py3plex.visualization.benchmark_visualizations module py3plex.visualization.bezier module py3plex.visualization.colors module py3plex.visualization.drawing_machinery module py3plex.visualization.embedding_visualization.embedding_visualization module py3plex.visualization.fa2.fa2util module py3plex.visualization.fa2.forceatlas2 module py3plex.visualization.layout_algorithms module py3plex.visualization.multilayer module py3plex.visualization.sankey module py3plex.wrappers.benchmark_nodes module py3plex.wrappers.train_node2vec_embedding module py3plex_version (py3plex.compat.GraphMeta attribute), [1] Py3plexException Py3plexFormatError Py3plexIOError Py3plexLayoutError Py3plexMatrixError

R

random_walk_with_restart() (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank method) Ranked (py3plex.algorithms.hedwig.core.example.Example attribute) read() (in module py3plex.io.api) read_ground_truth_communities() (py3plex.core.multinet.multi_layer_network method) reason (py3plex.compat.exceptions.CompatibilityError attribute) record() (py3plex.profiling.PerformanceMonitor method) Region (class in py3plex.visualization.fa2.fa2util) register_plugin() (PluginRegistry method) register_reader() (in module py3plex.io.api) register_writer() (in module py3plex.io.api) remove_edges() (py3plex.core.multinet.multi_layer_network method) remove_layer_edges() (py3plex.core.multinet.multi_layer_network method) remove_nodes() (py3plex.core.multinet.multi_layer_network method) require() (in module py3plex.algorithms.multicentrality) (in module py3plex.algorithms.statistics.basic_statistics) (in module py3plex.core.converters) (in module py3plex.core.multinet) (in module py3plex.core.nx_compat) (in module py3plex.core.parsers) (in module py3plex.core.supporting) (in module py3plex.io.api) (in module py3plex.multinet.aggregation) (in module py3plex.utils) (in module py3plex.visualization.layout_algorithms)

reset() (PluginRegistry class method) reset_to_defaults() (in module py3plex.config) resilience() (in module py3plex.algorithms.statistics.multilayer_statistics) restart_prob (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute) return_infomap_communities() (in module py3plex.algorithms.community_detection.community_ranking) rf_value() (in module py3plex.core.HINMINE.decomposition) RGB_to_hex() (in module py3plex.visualization.colors) RicciBackendNotAvailable Rule (class in py3plex.algorithms.hedwig.core.rule) rule_kernel() (in module py3plex.algorithms.hedwig) rule_report() (py3plex.algorithms.hedwig.core.rule.Rule method) ruleset_examples_json() (py3plex.algorithms.hedwig.core.rule.Rule static method) ruleset_report() (py3plex.algorithms.hedwig.core.rule.Rule static method) run() (in module py3plex.algorithms.hedwig) run_infomap() (in module py3plex.algorithms.community_detection.community_wrapper) run_learner() (in module py3plex.algorithms.hedwig) run_PPR() (in module py3plex.algorithms.node_ranking)

S

save_edgelist() (in module py3plex.core.parsers) save_gpickle() (in module py3plex.core.parsers) save_multiedgelist() (in module py3plex.core.parsers) save_network() (py3plex.core.multinet.multi_layer_network method) schema_version (py3plex.compat.GraphMeta attribute), [1] SchemaError SCORE (py3plex.algorithms.hedwig.core.settings.Defaults attribute) SemiringError SemiringExecutionError SemiringValidationError serialize_to_edgelist() (py3plex.core.multinet.multi_layer_network method) set_node_attribute() (py3plex.core.multinet.multi_layer_network method) set_partial_fit_request() (py3plex.wrappers.benchmark_nodes.TopKRanker method) set_predict_request() (py3plex.wrappers.benchmark_nodes.TopKRanker method) set_score_request() (py3plex.wrappers.benchmark_nodes.TopKRanker method) setup_logging() (in module py3plex.logging_config) signrank() (in module py3plex.algorithms.statistics.bayesiantests) signrank_MC() (in module py3plex.algorithms.statistics.bayesiantests) signtest() (in module py3plex.algorithms.statistics.bayesiantests) signtest_MC() (in module py3plex.algorithms.statistics.bayesiantests) Similarity (py3plex.algorithms.hedwig.learners.bottomup.BottomUpLearner attribute) (py3plex.algorithms.hedwig.learners.learner.Learner attribute) similarity() (py3plex.algorithms.hedwig.core.rule.Rule method) size() (py3plex.algorithms.hedwig.core.rule.Rule method) size_distribution() (in module py3plex.algorithms.community_detection.community_measures) sparse2graph() (in module py3plex.wrappers.benchmark_nodes) sparse_page_rank() (in module py3plex.algorithms.node_ranking) (in module py3plex.algorithms.node_ranking.node_ranking) sparse_to_px() (py3plex.core.multinet.multi_layer_network method) specialize() (py3plex.algorithms.hedwig.learners.learner.Learner method)

specialize_add_relation() (py3plex.algorithms.hedwig.learners.learner.Learner method) split_to_indices() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) split_to_layers() (in module py3plex.core.supporting) (py3plex.core.multinet.multi_layer_network method) split_to_parts() (py3plex.core.HINMINE.dataStructures.HeterogeneousInformationNetwork method) spread_percent_hyper (in module py3plex.algorithms.node_ranking) spread_step_hyper (in module py3plex.algorithms.node_ranking) spreading_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) src (py3plex.compat.EdgeTable attribute), [1] src_layer (py3plex.compat.EdgeTable attribute), [1] start() (py3plex.visualization.fa2.forceatlas2.Timer method) stats (py3plex.profiling.PerformanceMonitor attribute) Status (class in py3plex.algorithms.community_detection.community_louvain) stochastic_normalization() (in module py3plex.algorithms.node_ranking) (in module py3plex.algorithms.node_ranking.node_ranking) stochastic_normalization_hin() (in module py3plex.algorithms.node_ranking.node_ranking) stop() (py3plex.visualization.fa2.forceatlas2.Timer method) strongGravity() (in module py3plex.visualization.fa2.fa2util) subgraph_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) subnetwork() (py3plex.core.multinet.multi_layer_network method) suggestions (py3plex.compat.exceptions.CompatibilityError attribute) (py3plex.exceptions.Py3plexException attribute) summary() (py3plex.core.multinet.multi_layer_network method) super_classes() (py3plex.algorithms.hedwig.core.kb.ExperimentKB method) SUPPORT (py3plex.algorithms.hedwig.core.settings.Defaults attribute) supported_formats() (in module py3plex.io.api) supra_adjacency_matrix_plot() (in module py3plex.visualization.multilayer) supra_degree_centrality() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) supra_laplacian_spectrum() (in module py3plex.algorithms.statistics.multilayer_statistics) supra_matrix (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute)

T

t_score() (in module py3plex.algorithms.hedwig.stats.scorefunctions) table_to_latex() (in module py3plex.visualization.benchmark_visualizations) TARGET (py3plex.algorithms.hedwig.core.settings.Defaults attribute) targeted_layer_removal() (in module py3plex.algorithms.statistics.multilayer_statistics) test() (py3plex.algorithms.hedwig.stats.validate.Validate method) test_scale_free() (py3plex.core.multinet.multi_layer_network method) timed_section() (in module py3plex.profiling) Timer (class in py3plex.visualization.fa2.forceatlas2) to_dict() (py3plex.compat.EdgeTable method) (py3plex.compat.GraphIR method) (py3plex.compat.GraphMeta method) (py3plex.compat.GraphSchema method) (py3plex.compat.NodeTable method) to_homogeneous_hypergraph() (py3plex.core.multinet.multi_layer_network method)

to_igraph_from_ir() (in module py3plex.compat.converters.igraph_converter) to_ir() (in module py3plex.compat) to_json() (py3plex.algorithms.hedwig.core.rule.Rule static method) (py3plex.core.multinet.multi_layer_network method) to_multilayer() (py3plex.core.multinet.multi_layer_network method) to_multiplex() (py3plex.core.multinet.multi_layer_network method) to_networkx() (py3plex.core.multinet.multi_layer_network method) to_networkx_from_ir() (in module py3plex.compat.converters.networkx_converter) to_scipy_sparse_from_ir() (in module py3plex.compat.converters.scipy_converter) to_sparse_matrix() (py3plex.core.multinet.multi_layer_network method) TopKRanker (class in py3plex.wrappers.benchmark_nodes) total_communicability() (py3plex.algorithms.multilayer_algorithms.centrality.MultilayerCentrality method) total_weight (py3plex.algorithms.community_detection.community_louvain.Status attribute) transition_matrix (py3plex.algorithms.multilayer_algorithms.multixrank.MultiXRank attribute)

U

UnaryPredicate (class in py3plex.algorithms.hedwig.core.predicate) unique_redundant_edges() (in module py3plex.algorithms.statistics.multilayer_statistics) unregister() (PluginRegistry method)

unsafe_types (py3plex.compat.GraphSchema attribute), [1] updateMassAndGeometry() (py3plex.visualization.fa2.fa2util.Region method) URIS (py3plex.algorithms.hedwig.core.settings.Defaults attribute)

V

Validate (class in py3plex.algorithms.hedwig.stats.validate) validate_against_schema() (in module py3plex.compat) validate_csv_columns() (in module py3plex.validation) validate_edgelist_format() (in module py3plex.validation) validate_file_exists() (in module py3plex.validation) validate_input_type() (in module py3plex.validation) validate_label_propagation() (in module py3plex.algorithms.network_classification) validate_multiedgelist_format() (in module py3plex.validation) validate_multilayer_input() (in module py3plex.utils) validate_network_data() (in module py3plex.validation)

VERBOSE (py3plex.algorithms.hedwig.core.settings.Defaults attribute) versatility_centrality() (in module py3plex.algorithms.statistics.multilayer_statistics) VisualizationError visualize_embedding() (in module py3plex.visualization.embedding_visualization.embedding_visualization) visualize_matrix() (py3plex.core.multinet.multi_layer_network method) visualize_multilayer_network() (in module py3plex.visualization.multilayer) visualize_network() (py3plex.core.multinet.multi_layer_network method) visualize_ricci_core() (py3plex.core.multinet.multi_layer_network method) visualize_ricci_layers() (py3plex.core.multinet.multi_layer_network method) visualize_ricci_supra() (py3plex.core.multinet.multi_layer_network method)

W

warn_if_deprecated() (in module py3plex.utils)

wracc() (in module py3plex.algorithms.hedwig.stats.scorefunctions) write() (in module py3plex.io.api)

Z

z_score() (in module py3plex.algorithms.hedwig.stats.scorefunctions)