Index

A

ACDCrossValidation (class in probinet.model_selection.acd_cross_validation) additional_fields (probinet.models.mtcov.MTCOV attribute) adjacency_tensor (probinet.models.classes.GraphData attribute)

affinity_matrix() (in module probinet.synthetic.base) anomaly_network_PB() (probinet.synthetic.anomaly.SyntNetAnomaly method) AnomalyDetection (class in probinet.models.acd) ASSORTATIVE (probinet.synthetic.base.Structure attribute)

B

BaseSyntheticNetwork (class in probinet.synthetic.base) (class in probinet.synthetic.multilayer) build_adjacency_and_design_from_file() (in module probinet.input.loader) build_adjacency_from_file() (in module probinet.input.loader) build_adjacency_from_networkx() (in module probinet.input.loader)

build_edgelist() (in module probinet.utils.tools) build_X() (probinet.synthetic.multilayer.SyntheticMTCOV method) build_Y() (probinet.synthetic.base.StandardMMSBM method) (probinet.synthetic.multilayer.SyntheticMTCOV method) (probinet.synthetic.reciprocity.ReciprocityMMSBM_joints method)

C

calculate_conditional_expectation() (in module probinet.evaluation.expectation_computation) calculate_conditional_expectation_dyncrep() (in module probinet.evaluation.expectation_computation) calculate_expectation() (in module probinet.evaluation.expectation_computation) calculate_expectation_acd() (in module probinet.evaluation.expectation_computation) calculate_f1_score() (in module probinet.evaluation.link_prediction) calculate_metric() (in module probinet.evaluation.community_detection) calculate_opt_func() (in module probinet.evaluation.likelihood) calculate_performance_and_prepare_comparison() (probinet.model_selection.acd_cross_validation.ACDCrossValidation method) (probinet.model_selection.crep_cross_validation.CRepCrossValidation method) (probinet.model_selection.dyncrep_cross_validation.DynCRepCrossValidation method) (probinet.model_selection.jointcrep_cross_validation.JointCRepCrossValidation method) (probinet.model_selection.mtcov_cross_validation.MTCOVCrossValidation method) calculate_Q_dense() (in module probinet.evaluation.expectation_computation) calculate_Z() (in module probinet.evaluation.expectation_computation) can_cast_to_int() (in module probinet.utils.tools) check_params_to_load_data() (probinet.models.base.ModelBase method) (probinet.models.crep.CRep method) (probinet.models.dyncrep.DynCRep method) check_reciprocity_tm1() (probinet.synthetic.dynamic.SyntheticDynCRep method) check_symmetric() (in module probinet.utils.tools) compute_AUC_from_ranked_predictions() (in module probinet.evaluation.link_prediction) compute_community_detection_metric() (in module probinet.evaluation.community_detection) compute_covariate_prediction_accuracy() (in module probinet.evaluation.covariate_prediction) compute_expected_adjacency_tensor() (in module probinet.evaluation.expectation_computation) compute_expected_adjacency_tensor_multilayer() (in module probinet.evaluation.expectation_computation)

compute_L1loss() (in module probinet.evaluation.link_prediction) compute_lagrange_multiplier() (in module probinet.evaluation.expectation_computation) compute_likelihood() (probinet.models.acd.AnomalyDetection method) (probinet.models.base.ModelBase method) (probinet.models.crep.CRep method) (probinet.models.dyncrep.DynCRep method) (probinet.models.jointcrep.JointCRep method) (probinet.models.mtcov.MTCOV method) compute_link_prediction_AUC() (in module probinet.evaluation.link_prediction) compute_M_joint() (in module probinet.evaluation.expectation_computation) compute_marginal_and_conditional_expectation() (in module probinet.evaluation.expectation_computation) compute_mean_lambda0() (in module probinet.evaluation.expectation_computation) compute_mean_lambda0_dyncrep() (in module probinet.evaluation.expectation_computation) compute_mean_lambda0_nonzero() (in module probinet.evaluation.expectation_computation) compute_multilayer_link_prediction_AUC() (in module probinet.evaluation.link_prediction) compute_permutation_matrix() (in module probinet.evaluation.community_detection) convergence_tol (probinet.models.base.ModelBaseParameters attribute), [1] CORE_PERIPHERY (probinet.synthetic.base.Structure attribute) cosine_similarity() (in module probinet.evaluation.community_detection) create_adjacency_tensor_from_graph_list() (in module probinet.input.preprocessing) create_design_matrix() (in module probinet.utils.tools) create_sparse_adjacency_tensor_from_graph_list() (in module probinet.input.preprocessing) CRep (class in probinet.models.crep) CRepCrossValidation (class in probinet.model_selection.crep_cross_validation) cross_validation() (in module probinet.model_selection.main) CrossValidation (class in probinet.model_selection.cross_validation)

D

data_values (probinet.models.classes.GraphData attribute) decision (probinet.models.base.ModelBaseParameters attribute), [1] define_grid() (in module probinet.model_selection.parameter_search) (probinet.model_selection.cross_validation.CrossValidation static method)

design_matrix (probinet.models.classes.GraphData attribute) DIRECTED_BIASED (probinet.synthetic.base.Structure attribute) DISASSORTATIVE (probinet.synthetic.base.Structure attribute) DynCRep (class in probinet.models.dyncrep) DynCRepCrossValidation (class in probinet.model_selection.dyncrep_cross_validation)

E

enforce_constraintU() (probinet.models.dyncrep.DynCRep method) eq_c() (in module probinet.synthetic.dynamic) err (probinet.models.base.ModelBaseParameters attribute), [1] err_max (probinet.models.base.ModelBaseParameters attribute), [1] eta_fix_point() (probinet.models.jointcrep.JointCRep method) Exp_ija_matrix() (in module probinet.utils.matrix_operations) (probinet.synthetic.dynamic.SyntheticDynCRep method) extract_bridge_properties() (in module probinet.visualization.plot)

extract_mask() (probinet.model_selection.acd_cross_validation.ACDCrossValidation method) (probinet.model_selection.crep_cross_validation.CRepCrossValidation method) (probinet.model_selection.cross_validation.CrossValidation method) (probinet.model_selection.dyncrep_cross_validation.DynCRepCrossValidation method) (probinet.model_selection.jointcrep_cross_validation.JointCRepCrossValidation method) (probinet.model_selection.mtcov_cross_validation.MTCOVCrossValidation method) extract_mask_kfold() (in module probinet.model_selection.masking) extract_masks() (in module probinet.model_selection.masking) extract_true_label() (in module probinet.evaluation.covariate_prediction)

F

fit() (probinet.models.acd.AnomalyDetection method) (probinet.models.crep.CRep method) (probinet.models.dyncrep.DynCRep method) (probinet.models.jointcrep.JointCRep method) (probinet.models.mtcov.MTCOV method)

flag_conv (probinet.models.base.ModelBaseParameters attribute), [1] flt() (in module probinet.utils.tools) func_beta_static() (probinet.models.dyncrep.DynCRep method)

G

generate_net() (probinet.synthetic.dynamic.SyntheticDynCRep method) get_data_nonzero() (probinet.models.base.ModelBase method) get_data_sum() (probinet.models.base.ModelBase method) get_data_toarray() (probinet.models.base.ModelBase method) get_data_values() (probinet.models.base.ModelBase method) get_item_array_from_subs() (in module probinet.utils.tools) get_or_create_rng() (in module probinet.utils.tools)

get_params_to_load_data() (probinet.models.base.ModelBase method) (probinet.models.dyncrep.DynCRep method) (probinet.models.mtcov.MTCOV method) GM_reciprocity (class in probinet.synthetic.reciprocity) graph_list (probinet.models.classes.GraphData attribute) GraphData (class in probinet.models.classes) GraphProcessingMixin (class in probinet.synthetic.base)

I

inf (probinet.models.base.ModelBaseParameters attribute), [1] init_mmsbm_params() (probinet.synthetic.base.StandardMMSBM method) (probinet.synthetic.multilayer.SyntheticMTCOV method)

is_sparse() (in module probinet.utils.tools)

J

JointCRep (class in probinet.models.jointcrep)

JointCRepCrossValidation (class in probinet.model_selection.jointcrep_cross_validation)

L

likelihood_conditional() (in module probinet.evaluation.likelihood) load_data() (probinet.model_selection.cross_validation.CrossValidation method) (probinet.model_selection.mtcov_cross_validation.MTCOVCrossValidation method) (probinet.models.base.ModelBase method) (probinet.models.crep.CRep method) (probinet.models.mtcov.MTCOV method)

log_and_raise_error() (in module probinet.utils.tools) log_likelihood_given_model() (in module probinet.evaluation.likelihood) loglikelihood() (in module probinet.evaluation.likelihood) loglikelihood_attributes() (in module probinet.evaluation.likelihood) loglikelihood_network() (in module probinet.evaluation.likelihood)

M

main() (in module probinet.main) mapping() (in module probinet.visualization.plot) mask_or_flatten_array() (in module probinet.evaluation.link_prediction) max_iter (probinet.models.base.ModelBaseParameters attribute), [1] membership_vectors() (in module probinet.synthetic.dynamic) ModelBase (class in probinet.models.base) ModelBaseParameters (class in probinet.models.base) ModelUpdateMixin (class in probinet.models.base) module probinet.evaluation probinet.evaluation.community_detection probinet.evaluation.covariate_prediction probinet.evaluation.expectation_computation probinet.evaluation.likelihood probinet.evaluation.link_prediction probinet.input probinet.input.loader probinet.input.preprocessing probinet.input.stats probinet.main probinet.model_selection probinet.model_selection.acd_cross_validation probinet.model_selection.crep_cross_validation probinet.model_selection.cross_validation probinet.model_selection.dyncrep_cross_validation probinet.model_selection.jointcrep_cross_validation probinet.model_selection.main probinet.model_selection.masking probinet.model_selection.mtcov_cross_validation probinet.model_selection.parameter_search probinet.models probinet.models.acd probinet.models.base probinet.models.classes probinet.models.constants probinet.models.crep probinet.models.dyncrep probinet.models.jointcrep probinet.models.mtcov probinet.synthetic probinet.synthetic.anomaly probinet.synthetic.base probinet.synthetic.dynamic probinet.synthetic.multilayer probinet.synthetic.reciprocity probinet.utils probinet.utils.matrix_operations probinet.utils.tools probinet.version probinet.visualization probinet.visualization.plot

MTCOV (class in probinet.models.mtcov) MTCOVCrossValidation (class in probinet.model_selection.mtcov_cross_validation)

N

nodes (probinet.models.classes.GraphData attribute)

normalize_nonzero_membership() (in module probinet.utils.matrix_operations) num_realizations (probinet.models.base.ModelBaseParameters attribute), [1]

O

output_adjacency() (in module probinet.utils.tools) (probinet.synthetic.base.GraphProcessingMixin method)

output_design_matrix() (in module probinet.synthetic.multilayer)

P

parse_args() (in module probinet.main) pi_ik_matrix() (in module probinet.synthetic.multilayer) planted_network_cond_independent() (probinet.synthetic.reciprocity.GM_reciprocity method) planted_network_reciprocity_only() (probinet.synthetic.reciprocity.GM_reciprocity method) plot_A() (in module probinet.visualization.plot) plot_adjacency() (in module probinet.visualization.plot) plot_adjacency_samples() (in module probinet.visualization.plot) plot_graph() (in module probinet.visualization.plot) plot_hard_membership() (in module probinet.visualization.plot) plot_L() (in module probinet.visualization.plot) plot_loglik (probinet.models.base.ModelBaseParameters attribute), [1] plot_M() (in module probinet.visualization.plot) plot_precision_recall() (in module probinet.visualization.plot) plot_soft_membership() (in module probinet.visualization.plot) plot_X() (in module probinet.synthetic.multilayer) predict_label() (in module probinet.evaluation.covariate_prediction) prepare_and_run() (probinet.model_selection.acd_cross_validation.ACDCrossValidation method) (probinet.model_selection.cross_validation.CrossValidation method) (probinet.model_selection.dyncrep_cross_validation.DynCRepCrossValidation method) (probinet.model_selection.mtcov_cross_validation.MTCOVCrossValidation method) prepare_file_name() (probinet.model_selection.cross_validation.CrossValidation method) prepare_output_directory() (probinet.model_selection.cross_validation.CrossValidation method) preprocess_adjacency_tensor() (in module probinet.input.preprocessing) preprocess_data_for_fit() (probinet.models.mtcov.MTCOV method) preprocess_data_matrix() (in module probinet.input.preprocessing) print_graph_stats() (in module probinet.input.stats) print_graph_stats_MTCOV() (in module probinet.input.stats) probinet.evaluation module probinet.evaluation.community_detection module probinet.evaluation.covariate_prediction module probinet.evaluation.expectation_computation module probinet.evaluation.likelihood module probinet.evaluation.link_prediction module probinet.input module probinet.input.loader module probinet.input.preprocessing module probinet.input.stats module probinet.main module probinet.model_selection module probinet.model_selection.acd_cross_validation module probinet.model_selection.crep_cross_validation module probinet.model_selection.cross_validation module

probinet.model_selection.dyncrep_cross_validation module probinet.model_selection.jointcrep_cross_validation module probinet.model_selection.main module probinet.model_selection.masking module probinet.model_selection.mtcov_cross_validation module probinet.model_selection.parameter_search module probinet.models module probinet.models.acd module probinet.models.base module probinet.models.classes module probinet.models.constants module probinet.models.crep module probinet.models.dyncrep module probinet.models.jointcrep module probinet.models.mtcov module probinet.synthetic module probinet.synthetic.anomaly module probinet.synthetic.base module probinet.synthetic.dynamic module probinet.synthetic.multilayer module probinet.synthetic.reciprocity module probinet.utils module probinet.utils.matrix_operations module probinet.utils.tools module probinet.version module probinet.visualization module probinet.visualization.plot module PSloglikelihood() (in module probinet.evaluation.likelihood)

R

read_and_process_design_matrix() (in module probinet.input.loader) read_design_matrix() (in module probinet.input.loader) read_graph() (in module probinet.input.loader) reciprocal_edges() (in module probinet.input.stats)

reciprocity_planted_network() (probinet.synthetic.reciprocity.GM_reciprocity method) ReciprocityMMSBM_joints (class in probinet.synthetic.reciprocity) run_single_iteration() (probinet.model_selection.cross_validation.CrossValidation method) (probinet.model_selection.dyncrep_cross_validation.DynCRepCrossValidation method)

S

save_design_matrix() (in module probinet.utils.tools) save_results() (probinet.model_selection.cross_validation.CrossValidation method) shuffle_indices() (in module probinet.model_selection.masking) shuffle_indices_all_matrix() (in module probinet.model_selection.masking) shuffle_indicesG() (in module probinet.model_selection.masking) shuffle_indicesX() (in module probinet.model_selection.masking) sp_uttkrp() (in module probinet.utils.matrix_operations)

sp_uttkrp_assortative() (in module probinet.utils.matrix_operations) sptensor_from_dense_array() (in module probinet.utils.tools) StandardMMSBM (class in probinet.synthetic.base) Structure (class in probinet.synthetic.base) SyntheticDynCRep (class in probinet.synthetic.dynamic) SyntheticMTCOV (class in probinet.synthetic.multilayer) SyntNetAnomaly (class in probinet.synthetic.anomaly)

T

transpose_matrix() (in module probinet.utils.matrix_operations)

transpose_tensor() (in module probinet.utils.matrix_operations) transposed_tensor (probinet.models.classes.GraphData attribute)

U

u_with_lagrange_multiplier() (in module probinet.evaluation.expectation_computation)

W

write_adjacency() (in module probinet.utils.tools)

write_design_matrix() (in module probinet.utils.tools)