Index A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | R | S | T | U | V | W | X | Y A adapt_state_size (pymob.inference.numpyro_backend.NumpyroBackend property) algortihm (pymob.sim.config.Pymoo attribute) all (pymob.sim.config.Datastructure property) (pymob.sim.config.Errormodel property) (pymob.sim.config.Modelparameters property) allowed_model_signature_arguments (pymob.sim.evaluator.Evaluator property) array_param_to_1d() (pymob.inference.pyabc_backend.PyabcBackend static method) atol (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) B backend (pymob.sim.config.Inference attribute) batch_dimension (pymob.sim.config.Simulation attribute) (pymob.solvers.base.SolverBase attribute) benchmark() (in module pymob.utils.misc) C calculate_log_likelihood() (pymob.inference.numpyro_backend.NumpyroBackend method) case_study (pymob.sim.config.Config attribute) case_study_output() (in module pymob.utils.store_file) Casestudy (class in pymob.sim.config) cast_to_precision() (pymob.inference.numpyro_backend.NumpyroBackend static method) catch_patterns() (in module pymob.inference.numpyro_backend) (in module pymob.utils.config) chains (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) check_dimensions() (pymob.simulation.SimulationBase method) check_gradients() (pymob.inference.numpyro_backend.NumpyroBackend method) check_log_likelihood() (pymob.inference.numpyro_backend.NumpyroBackend method) check_scaled_results_feasibility() (pymob.simulation.SimulationBase method) check_tolerance_and_jax_mode() (pymob.inference.numpyro_backend.NumpyroBackend method) cluster_chains() (in module pymob.utils.bayesian) combine_chains() (pymob.inference.numpyro_backend.NumpyroBackend method) combine_legends() (in module pymob.utils.plot_helpers) compute() (pymob.simulation.SimulationBase method) Config (class in pymob.sim.config) coordinates (pymob.solvers.base.SolverBase attribute) coordinates_indices (pymob.solvers.base.SolverBase attribute) coordinates_input_vars (pymob.simulation.SimulationBase property) (pymob.solvers.base.SolverBase attribute) copy() (pymob.simulation.SimulationBase method) cores (pymob.sim.config.Multiprocessing attribute) create_data_scaler() (pymob.simulation.SimulationBase method) create_dataset_from_dict() (in module pymob.sim.evaluator) create_dataset_from_numpy() (in module pymob.sim.evaluator) create_directory() (pymob.sim.config.Config method) create_fname_date_ver() (in module pymob.utils.store_file) create_interpolated_coordinates() (pymob.simulation.SimulationBase method) create_log_likelihood() (pymob.inference.numpyro_backend.NumpyroBackend method) curve_jumps() (in module pymob.solvers.base) cvtol (pymob.sim.config.Pymoo attribute) D data (pymob.sim.config.Casestudy attribute) data_path (pymob.sim.config.Casestudy property) data_structure (pymob.sim.config.Config attribute) data_structure_and_dimensionality (pymob.solvers.base.SolverBase attribute) data_variables (pymob.sim.config.Datastructure property) (pymob.solvers.base.SolverBase attribute) data_variables_max (pymob.sim.config.Datastructure property) data_variables_min (pymob.sim.config.Datastructure property) database (pymob.inference.pyabc_backend.PyabcBackend property) database_path (pymob.sim.config.Pyabc attribute) Datastructure (class in pymob.sim.config) datavar_to_string() (in module pymob.sim.config) DataVariable (class in pymob.sim.config) Date2Delta (class in pymob.utils.misc) dayTicks() (in module pymob.utils.misc) dcoeff (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) debug_report (pymob.sim.config.Report attribute) default_settings_path (pymob.sim.config.Casestudy property) deserialize() (in module pymob.utils.store_file) diagnostics (pymob.sim.config.Report attribute) diagnostics_exclude_vars (pymob.sim.config.Report attribute) diagnostics_with_batch_dim_vars (pymob.sim.config.Report attribute) dict_to_string() (in module pymob.sim.config) diffrax_solver (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) dimdict (pymob.sim.config.Datastructure property) dimension_coords (pymob.simulation.SimulationBase property) dimension_sizes (pymob.solvers.base.SolverBase attribute) dimensionality (pymob.sim.evaluator.Evaluator property) dimensions (pymob.sim.config.Datastructure property) (pymob.sim.config.DataVariable attribute) (pymob.sim.config.Modelparameters property) (pymob.solvers.base.SolverBase attribute) dimensions_evaluator (pymob.sim.config.DataVariable attribute) dims_input_vars (pymob.solvers.base.SolverBase attribute) dispatch() (pymob.simulation.SimulationBase method) dispatch_constructor() (pymob.simulation.SimulationBase method) dist_name (pymob.inference.numpyro_backend.NumpyroDistribution property) distance_function_parser() (pymob.inference.pyabc_backend.PyabcBackend method) (pymob.inference.pymoo_backend.PymooBackend method) distribution_map (pymob.inference.numpyro_backend.NumpyroDistribution attribute) draw() (pymob.inference.pyabc_backend.Posterior method) draws (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) drop_vars_from_posterior() (pymob.inference.numpyro_backend.NumpyroBackend method) dX_dt2X() (in module pymob.utils.config) E enlist_attr() (in module pymob.sim.base) eps (pymob.sim.config.Inference attribute) error_model (pymob.sim.config.Config attribute) Errormodel (class in pymob.sim.config) ErrorModelFunction (class in pymob.inference.numpyro_backend) errormsg() (in module pymob.utils.errors) evaluate() (pymob.simulation.SimulationBase method) Evaluator (class in pymob.sim.evaluator) evaluator_dim_order (pymob.sim.config.Datastructure property) exclude_kwargs_model (pymob.sim.config.Solverbase attribute) (pymob.solvers.base.SolverBase attribute) exclude_kwargs_postprocessing (pymob.sim.config.Solverbase attribute) (pymob.solvers.base.SolverBase attribute) expand_grid() (in module pymob.utils.misc) export() (pymob.simulation.SimulationBase method) extra_vars (pymob.sim.config.Inference attribute) F fixed (pymob.sim.config.Modelparameters property) fixed_value_dict (pymob.sim.config.Modelparameters property) free (pymob.sim.config.Modelparameters property) free_value_dict (pymob.sim.config.Modelparameters property) from_directory() (pymob.simulation.SimulationBase class method) ftol (pymob.sim.config.Pymoo attribute) G gaussian_base_distribution (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) generate_transform() (pymob.inference.numpyro_backend.NumpyroBackend static method) get_call_signature() (pymob.sim.evaluator.Evaluator method) get_dict() (pymob.inference.numpyro_backend.NumpyroBackend static method) get_grouped_unique_val() (in module pymob.utils.misc) get_host() (in module pymob.utils.misc) get_limits_from_array() (in module pymob.utils.misc) get_return_arguments() (in module pymob.utils.config) get_version() (in module pymob.utils.errors) go_to_case_studies() (in module pymob.utils.store_file) goodness_of_fit (pymob.sim.config.Report attribute) goodness_of_fit_nrmse_mode (pymob.sim.config.Report attribute) goodness_of_fit_use_predictions (pymob.sim.config.Report attribute) H history_id (pymob.sim.config.Redis attribute) hourTicks() (in module pymob.utils.misc) I icoeff (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) import_casestudy_modules() (pymob.sim.config.Config method) import_optional_dependency() (in module pymob.utils.errors) import_package() (in module pymob.utils.store_file) import_simulation_from_case_study() (pymob.sim.config.Config method) indices (pymob.solvers.base.SolverBase attribute) Inference (class in pymob.sim.config) inference (pymob.sim.config.Config attribute) inference_numpyro (pymob.sim.config.Config attribute) inference_pyabc (pymob.sim.config.Config attribute) inference_pyabc_redis (pymob.sim.config.Config attribute) inference_pymoo (pymob.sim.config.Config attribute) init_root (pymob.sim.config.Casestudy attribute) init_strategy (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) initialize() (pymob.simulation.SimulationBase method) input_file_paths (pymob.sim.config.Config property) input_files (pymob.sim.config.Simulation attribute) invert_list_tuple() (in module pymob.utils.misc) is_number() (in module pymob.utils.store_file) is_stochastic (pymob.solvers.base.SolverBase attribute) J Jaxsolver (class in pymob.sim.config) JaxSolver (class in pymob.solvers.diffrax) jaxsolver (pymob.sim.config.Config attribute) jump_interpolation() (in module pymob.solvers.base) K kernel (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) L lambdify_expression() (in module pymob.utils.config) len_batch_coordinate (pymob.solvers.base.SolverBase attribute) linear_model() (in module pymob.examples.linear_regression) list_converter() (in module pymob.utils.store_file) list_to_string() (in module pymob.sim.config) load_results() (pymob.inference.numpyro_backend.NumpyroBackend method) (pymob.inference.pyabc_backend.PyabcBackend method) (pymob.inference.pymoo_backend.PymooBackend method) logfile (pymob.sim.config.Casestudy attribute) logging (pymob.sim.config.Casestudy attribute) lookup() (in module pymob.utils.config) lookup_args() (in module pymob.utils.config) lookup_from() (in module pymob.utils.config) M map_parameters() (pymob.inference.pyabc_backend.PyabcBackend static method) mappar() (in module pymob.solvers.base) match_columns() (in module pymob.utils.misc) max (pymob.sim.config.DataVariable attribute) max_nr_populations (pymob.inference.pyabc_backend.PyabcBackend property) (pymob.sim.config.Pyabc attribute) (pymob.sim.config.Pymoo attribute) max_steps (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) mean() (pymob.inference.pyabc_backend.Posterior method) min (pymob.sim.config.DataVariable attribute) min_eps_diff (pymob.inference.pyabc_backend.PyabcBackend property) (pymob.sim.config.Pyabc attribute) minimum_epsilon (pymob.inference.pyabc_backend.PyabcBackend property) (pymob.sim.config.Pyabc attribute) model (pymob.sim.config.Report attribute) (pymob.sim.config.Simulation attribute) (pymob.solvers.base.SolverBase attribute) model() (pymob.inference.numpyro_backend.NumpyroBackend method) model_config (pymob.sim.config.Casestudy attribute) (pymob.sim.config.Config attribute) (pymob.sim.config.Datastructure attribute) (pymob.sim.config.DataVariable attribute) (pymob.sim.config.Errormodel attribute) (pymob.sim.config.Inference attribute) (pymob.sim.config.Jaxsolver attribute) (pymob.sim.config.Modelparameters attribute) (pymob.sim.config.Multiprocessing attribute) (pymob.sim.config.Numpyro attribute) (pymob.sim.config.Pyabc attribute) (pymob.sim.config.PymobModel attribute) (pymob.sim.config.Pymoo attribute) (pymob.sim.config.Redis attribute) (pymob.sim.config.Report attribute) (pymob.sim.config.Simulation attribute) (pymob.sim.config.Solverbase attribute) model_fields (pymob.sim.config.Casestudy attribute) (pymob.sim.config.Config attribute) (pymob.sim.config.Datastructure attribute) (pymob.sim.config.DataVariable attribute) (pymob.sim.config.Errormodel attribute) (pymob.sim.config.Inference attribute) (pymob.sim.config.Jaxsolver attribute) (pymob.sim.config.Modelparameters attribute) (pymob.sim.config.Multiprocessing attribute) (pymob.sim.config.Numpyro attribute) (pymob.sim.config.Pyabc attribute) (pymob.sim.config.PymobModel attribute) (pymob.sim.config.Pymoo attribute) (pymob.sim.config.Redis attribute) (pymob.sim.config.Report attribute) (pymob.sim.config.Simulation attribute) (pymob.sim.config.Solverbase attribute) model_id (pymob.sim.config.Redis attribute) model_parameters (pymob.sim.config.Config attribute) model_parser() (pymob.inference.pyabc_backend.PyabcBackend method) model_post_init() (pymob.sim.config.Config method) (pymob.sim.config.Multiprocessing method) (pymob.sim.config.Redis method) ModelParameterDict (class in pymob.sim.config) Modelparameters (class in pymob.sim.config) modeltype (pymob.sim.config.Simulation attribute) module pymob pymob.examples pymob.examples.linear_regression pymob.infer pymob.inference pymob.inference.numpyro_backend pymob.inference.pyabc_backend pymob.inference.pymoo_backend pymob.prior_predictive_checks pymob.sim pymob.sim.base pymob.sim.config pymob.sim.evaluator pymob.sim.solvetools pymob.simulate pymob.solvers pymob.solvers.analytic pymob.solvers.base pymob.solvers.diffrax pymob.solvers.scipy pymob.utils pymob.utils.bayesian pymob.utils.config pymob.utils.errors pymob.utils.help pymob.utils.math_helpers pymob.utils.misc pymob.utils.plot_helpers pymob.utils.store_file modules (pymob.sim.config.Casestudy attribute) Multiprocessing (class in pymob.sim.config) multiprocessing (pymob.sim.config.Config attribute) N n_cores (pymob.sim.config.Multiprocessing property) n_free (pymob.sim.config.Modelparameters property) n_objectives (pymob.sim.config.Inference attribute) n_ode_states (pymob.sim.config.Simulation attribute) (pymob.solvers.base.SolverBase attribute) n_predictions (pymob.sim.config.Inference attribute) (pymob.sim.config.Redis attribute) name (pymob.sim.config.Casestudy attribute) Numpyro (class in pymob.sim.config) NumpyroBackend (class in pymob.inference.numpyro_backend) NumpyroDistribution (class in pymob.inference.numpyro_backend) nuts_adapt_mass_matrix (pymob.sim.config.Numpyro attribute) nuts_adapt_step_size (pymob.sim.config.Numpyro attribute) nuts_dense_mass (pymob.sim.config.Numpyro attribute) nuts_draws (pymob.sim.config.Numpyro attribute) nuts_max_tree_depth (pymob.sim.config.Numpyro attribute) nuts_posterior() (pymob.inference.numpyro_backend.NumpyroBackend method) nuts_step_size (pymob.sim.config.Numpyro attribute) nuts_target_accept_prob (pymob.sim.config.Numpyro attribute) O objective_function (pymob.sim.config.Inference attribute) objective_names (pymob.sim.config.Inference attribute) observation_parser() (pymob.inference.numpyro_backend.NumpyroBackend method) observations (pymob.sim.config.Casestudy attribute) observed (pymob.sim.config.DataVariable attribute) observed_data_variables (pymob.sim.config.Datastructure property) observed_data_variables_max (pymob.sim.config.Datastructure property) observed_data_variables_min (pymob.sim.config.Datastructure property) observed_dimdict (pymob.sim.config.Datastructure property) odesolve() (pymob.solvers.diffrax.JaxSolver method) odesolve_splitargs() (pymob.solvers.diffrax.JaxSolver method) opt() (in module pymob.utils.store_file) OptimizationProblem (class in pymob.inference.pymoo_backend) optimize() (pymob.inference.pymoo_backend.PymooBackend method) output (pymob.sim.config.Casestudy attribute) output_path (pymob.sim.config.Casestudy property) P package (pymob.sim.config.Casestudy attribute) pandoc_output_format (pymob.sim.config.Report attribute) param_to_prior() (pymob.inference.pyabc_backend.PyabcBackend static method) param_to_string() (in module pymob.sim.config) parameter_converter() (pymob.inference.numpyro_backend.NumpyroDistribution static method) parameter_dims (pymob.solvers.base.SolverBase attribute) ParameterDict (class in pymob.sim.config) parameterize() (pymob.simulation.SimulationBase static method) parameters (pymob.sim.config.ModelParameterDict attribute) (pymob.sim.config.Report attribute) (pymob.sim.evaluator.Evaluator property) parameters_format (pymob.sim.config.Report attribute) parse_config_section() (in module pymob.utils.store_file) parse_deterministic_model() (pymob.inference.numpyro_backend.NumpyroBackend method) parse_input() (pymob.simulation.SimulationBase method) parse_probabilistic_model() (pymob.inference.numpyro_backend.NumpyroBackend method) password (pymob.sim.config.Redis attribute) pcoeff (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) pivot_xarray() (in module pymob.utils.misc) plot (pymob.sim.config.Inference attribute) plot() (pymob.inference.pyabc_backend.PyabcBackend method) plot_chains() (pymob.inference.pyabc_backend.PyabcBackend method) plot_hist() (in module pymob.utils.plot_helpers) plot_loghist() (in module pymob.utils.plot_helpers) plot_parameter_pairs (pymob.sim.config.Report attribute) plot_predictions() (pymob.inference.pyabc_backend.PyabcBackend method) (pymob.inference.pymoo_backend.PymooBackend method) plot_trace (pymob.sim.config.Report attribute) pop_key() (in module pymob.utils.misc) population_size (pymob.inference.pyabc_backend.PyabcBackend property) (pymob.sim.config.Pyabc attribute) (pymob.sim.config.Pymoo attribute) port (pymob.sim.config.Redis attribute) post_processing (pymob.solvers.base.SolverBase attribute) post_processing() (pymob.inference.pymoo_backend.PymooBackend method) post_update() (pymob.sim.config.DataVariable method) Posterior (class in pymob.inference.pyabc_backend) posterior (pymob.inference.numpyro_backend.NumpyroBackend property) posterior() (pymob.simulation.SimulationBase.Report method) posterior_coordinates (pymob.inference.pyabc_backend.PyabcBackend property) posterior_data_structure (pymob.inference.pyabc_backend.PyabcBackend property) posterior_draws_from_svi() (pymob.inference.numpyro_backend.NumpyroBackend method) posterior_predictions() (pymob.inference.numpyro_backend.NumpyroBackend method) (pymob.inference.pyabc_backend.PyabcBackend method) posterior_predictive_checks() (pymob.simulation.SimulationBase method) predict_observations() (pymob.inference.numpyro_backend.NumpyroBackend method) prepare_casestudy() (in module pymob.utils.store_file) prepare_casestudy_sbi() (in module pymob.utils.store_file) prepare_sbi() (in module pymob.utils.store_file) prepare_scenario() (in module pymob.utils.store_file) preprocess_parameters() (pymob.solvers.base.SolverBase method) (pymob.solvers.diffrax.JaxSolver method) preprocess_x_in() (pymob.solvers.base.SolverBase method) (pymob.solvers.diffrax.JaxSolver method) preprocess_y_0() (pymob.solvers.base.SolverBase method) (pymob.solvers.diffrax.JaxSolver method) preprocessing() (pymob.inference.numpyro_backend.NumpyroBackend static method) print() (pymob.sim.config.Config method) prior (pymob.inference.numpyro_backend.NumpyroBackend attribute) prior_parser() (pymob.inference.pyabc_backend.PyabcBackend method) prior_predictions() (pymob.inference.numpyro_backend.NumpyroBackend method) prior_predictive_checks() (pymob.simulation.SimulationBase method) Pyabc (class in pymob.sim.config) PyabcBackend (class in pymob.inference.pyabc_backend) pymob module pymob.examples module pymob.examples.linear_regression module pymob.infer module pymob.inference module pymob.inference.numpyro_backend module pymob.inference.pyabc_backend module pymob.inference.pymoo_backend module pymob.prior_predictive_checks module pymob.sim module pymob.sim.base module pymob.sim.config module pymob.sim.evaluator module pymob.sim.solvetools module pymob.simulate module pymob.solvers module pymob.solvers.analytic module pymob.solvers.base module pymob.solvers.diffrax module pymob.solvers.scipy module pymob.utils module pymob.utils.bayesian module pymob.utils.config module pymob.utils.errors module pymob.utils.help module pymob.utils.math_helpers module pymob.utils.misc module pymob.utils.plot_helpers module pymob.utils.store_file module pymob_version (pymob.sim.config.Casestudy attribute) PymobError PymobModel (class in pymob.sim.config) Pymoo (class in pymob.sim.config) PymooBackend (class in pymob.inference.pymoo_backend) R radius_interpolation() (in module pymob.solvers.base) read_config() (in module pymob.utils.config) (in module pymob.utils.store_file) read_settings() (in module pymob.utils.store_file) rect_interpolation() (in module pymob.solvers.base) Redis (class in pymob.sim.config) remove() (pymob.sim.config.Datastructure method) (pymob.sim.config.Modelparameters method) reorder() (pymob.sim.config.Modelparameters method) repeat_func() (in module pymob.utils.misc) replace_na() (in module pymob.utils.misc) Report (class in pymob.sim.config) report (pymob.sim.config.Config attribute) report() (pymob.simulation.SimulationBase method) reroute_output_to_base() (in module pymob.utils.store_file) reshape_observations() (pymob.simulation.SimulationBase method) result (pymob.sim.evaluator.Evaluator attribute) results (pymob.sim.evaluator.Evaluator property) root (pymob.sim.config.Casestudy attribute) round_decimals_down() (in module pymob.utils.misc) round_to_nearest_multiple_of_y() (in module pymob.utils.math_helpers) rtol (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) run() (pymob.inference.numpyro_backend.NumpyroBackend method) (pymob.inference.pyabc_backend.PyabcBackend method) (pymob.inference.pymoo_backend.PymooBackend method) (pymob.simulation.SimulationBase method) run_mcmc() (pymob.inference.numpyro_backend.NumpyroBackend method) run_svi() (pymob.inference.numpyro_backend.NumpyroBackend static method) S sa_adapt_state_size (pymob.sim.config.Numpyro attribute) sampler (pymob.inference.pyabc_backend.PyabcBackend property) (pymob.sim.config.Pyabc attribute) save() (pymob.sim.config.Config method) save_observations() (pymob.simulation.SimulationBase method) scenario (pymob.sim.config.Casestudy attribute) scenario_file() (in module pymob.utils.store_file) scenario_path (pymob.sim.config.Casestudy property) scenario_path_override (pymob.sim.config.Casestudy attribute) seed (pymob.sim.config.Simulation attribute) select_cluster() (pymob.inference.numpyro_backend.NumpyroBackend static method) sequential_filename_iterator() (in module pymob.utils.store_file) serialize() (in module pymob.utils.store_file) set_data_variable_bounds() (pymob.sim.config.DataVariable class method) set_option() (pymob.sim.config.Config method) set_root() (pymob.sim.config.Casestudy class method) setup() (pymob.simulation.SimulationBase method) shapes_coordinates (pymob.solvers.base.SolverBase attribute) shapes_input_vars_coordinates (pymob.solvers.base.SolverBase attribute) shapes_parameter_coordinates (pymob.solvers.base.SolverBase attribute) Simulation (class in pymob.sim.config) simulation (pymob.sim.config.Casestudy attribute) (pymob.sim.config.Config attribute) simulation_io_adapter() (in module pymob.utils.config) SimulationBase (class in pymob.simulation) SimulationBase.Report (class in pymob.simulation) smoothed_interpolation() (in module pymob.solvers.base) solve() (pymob.solvers.base.SolverBase method) (pymob.solvers.diffrax.JaxSolver method) solve_analytic_1d() (in module pymob.solvers.analytic) solve_ivp_1d() (in module pymob.solvers.scipy) solver (pymob.sim.config.Simulation attribute) solver_kwargs (pymob.solvers.base.SolverBase attribute) solver_post_processing (pymob.sim.config.Simulation attribute) Solverbase (class in pymob.sim.config) SolverBase (class in pymob.solvers.base) solverbase (pymob.sim.config.Config attribute) spawn() (pymob.sim.evaluator.Evaluator method) stack_variables() (in module pymob.sim.base) store_results() (pymob.inference.numpyro_backend.NumpyroBackend method) (pymob.inference.pyabc_backend.PyabcBackend method) (pymob.inference.pymoo_backend.PymooBackend method) store_sbi_simulations() (in module pymob.utils.store_file) string_to_datavar() (in module pymob.sim.config) string_to_dict() (in module pymob.sim.config) string_to_list() (in module pymob.sim.config) string_to_param() (in module pymob.sim.config) string_to_tuple() (in module pymob.sim.config) subset_by_batch_dimension() (pymob.simulation.SimulationBase method) svi_iterations (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) svi_learning_rate (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) svi_posterior() (pymob.inference.numpyro_backend.NumpyroBackend method) T table_parameter_estimates (pymob.sim.config.Report attribute) table_parameter_estimates_error_metric (pymob.sim.config.Report attribute) table_parameter_estimates_exclude_vars (pymob.sim.config.Report attribute) table_parameter_estimates_format (pymob.sim.config.Report attribute) table_parameter_estimates_override_names (pymob.sim.config.Report attribute) table_parameter_estimates_parameters_as_rows (pymob.sim.config.Report attribute) table_parameter_estimates_significant_figures (pymob.sim.config.Report attribute) table_parameter_estimates_with_batch_dim_vars (pymob.sim.config.Report attribute) take_mean() (in module pymob.utils.math_helpers) test_batch_dim_consistency() (pymob.solvers.base.SolverBase method) test_matching_batch_dims() (pymob.solvers.base.SolverBase method) test_x_coordinates() (pymob.solvers.base.SolverBase method) thinning (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) throw_exception (pymob.sim.config.Jaxsolver attribute) (pymob.solvers.diffrax.JaxSolver attribute) to_arviz_idata() (pymob.inference.numpyro_backend.NumpyroBackend method) to_dict() (pymob.inference.pyabc_backend.Posterior method) to_xarray_dataset() (in module pymob.utils.misc) total_average() (pymob.simulation.SimulationBase method) U unixify_path() (in module pymob.utils.store_file) unlist_attrs() (in module pymob.sim.base) unnest() (in module pymob.utils.store_file) update() (pymob.sim.config.ParameterDict method) user_defined_error_model (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) user_defined_preprocessing (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) user_defined_probability_model (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) V validate_model_input() (pymob.simulation.SimulationBase static method) value_dict (pymob.sim.config.Modelparameters property) var_dim_mapper (pymob.sim.config.Datastructure property) variable_mapper() (pymob.inference.pymoo_backend.PymooBackend method) variable_parser() (pymob.inference.pymoo_backend.PymooBackend method) verbose (pymob.sim.config.Pymoo attribute) version (pymob.sim.config.Casestudy attribute) W warmup (pymob.inference.numpyro_backend.NumpyroBackend property) (pymob.sim.config.Numpyro attribute) X x (pymob.solvers.base.SolverBase attribute) x_dim (pymob.sim.config.Solverbase attribute) (pymob.solvers.base.SolverBase attribute) x_dimension (pymob.sim.config.Simulation attribute) x_in (pymob.sim.config.ModelParameterDict attribute) (pymob.sim.config.Simulation attribute) x_in_jumps (pymob.solvers.diffrax.JaxSolver attribute) x_shape_batched (pymob.solvers.base.SolverBase attribute) xtol (pymob.sim.config.Pymoo attribute) Y y0 (pymob.sim.config.ModelParameterDict attribute) (pymob.sim.config.Simulation attribute)