eulerpi.core package

• Data Transformations
  • AffineTransformation
    • AffineTransformation.jacobian()
    • AffineTransformation.transform()
  • DataIdentity
    • DataIdentity.jacobian()
    • DataIdentity.transform()
  • DataNormalization
  • DataPCA
    • DataPCA.jacobian()
    • DataPCA.transform()
  • DataTransformation
    • DataTransformation.jacobian()
    • DataTransformation.transform()
• Dense Grid
  • evaluate_on_grid_chunk()
  • generate_chebyshev_grid()
  • generate_regular_grid()
  • inference_dense_grid()
  • run_dense_grid_evaluation()
• Dense Grid Types
  • DenseGridType
    • DenseGridType.CHEBYSHEV
    • DenseGridType.EQUIDISTANT
• Inference
  • inference()
• Inference Types
  • InferenceType
    • InferenceType.DENSE_GRID
    • InferenceType.MCMC
    • InferenceType.SPARSE_GRID
• KDE
  • calc_kernel_width()
  • eval_kde_cauchy()
  • eval_kde_gauss()
• Models
  • ArtificialModelInterface
    • ArtificialModelInterface.generate_artificial_data()
    • ArtificialModelInterface.generate_artificial_params()
  • BaseModel
    • BaseModel.forward()
    • BaseModel.forward_and_jacobian()
    • BaseModel.forward_vectorized()
    • BaseModel.jacobian()
    • BaseModel.param_is_within_domain()
    • BaseModel.data_dim
    • BaseModel.param_dim
  • JaxModel
    • JaxModel.forward_and_jacobian()
    • JaxModel.forward_method()
    • JaxModel.forward_vectorized()
    • JaxModel.init_fw_and_bw()
    • JaxModel.jacobian()
  • Model
  • SBMLModel
    • SBMLModel.forward()
    • SBMLModel.forward_and_jacobian()
    • SBMLModel.indices_from_ids()
    • SBMLModel.jacobian()
    • SBMLModel.load_amici_model_and_solver()
    • SBMLModel.setSensitivities()
    • SBMLModel.data_dim
    • SBMLModel.param_dim
• Model Check
  • basic_model_check()
  • full_model_check()
  • inference_model_check()
• Plotting
  • sample_violin_plot()
• Result Manager
  • ResultManager
    • ResultManager.model_name
    • ResultManager.run_name
    • ResultManager.count_emcee_sub_runs()
    • ResultManager.create_application_folder_structure()
    • ResultManager.create_slice_folder_structure()
    • ResultManager.delete_application_folder_structure()
    • ResultManager.delete_slice_folder_structure()
    • ResultManager.get_application_path()
    • ResultManager.get_slice_name()
    • ResultManager.get_slice_path()
    • ResultManager.load_inference_results()
    • ResultManager.load_slice_inference_results()
    • ResultManager.save_inference_information()
    • ResultManager.save_overall()
    • ResultManager.save_run()
• Sampling
  • calc_walker_acceptance()
  • inference_mcmc()
  • run_emcee_once()
  • run_emcee_sampling()
• Sparse Grid
  • SparseGrid
    • SparseGrid.dim
    • SparseGrid.max_level_sum
    • SparseGrid.subspace_list
    • SparseGrid.levels2index
    • SparseGrid.nSubspaces
    • SparseGrid.n_points
    • SparseGrid.allPoints
    • SparseGrid.compute_all_points()
    • SparseGrid.compute_coefficients()
    • SparseGrid.compute_index_list4top_down_sparse_grid_traverse()
    • SparseGrid.compute_integral()
    • SparseGrid.compute_n_points()
    • SparseGrid.eval_function_sg()
    • SparseGrid.refine_subspace()
  • Subspace
    • Subspace.eval_function()
    • Subspace.pass_contributions2higher_levels()
  • basis_1d()
  • basis_nd()
  • evaluate_on_sparse_grid()
  • inference_sparse_grid()
  • meshgrid2matrix()
• Transformations
  • calc_gram_determinant()
  • eval_log_transformed_density()
  • evaluate_density()