pyPESTO
python Parameter EStimation TOolbox
File Explorer
Download Latest Version (.zip)- blank.md
- bug-report.md
- feature-request.md
- ci.yml
- clear-cache.yml
- deploy.yml
- install_deps.sh
- publish_dockerhub.yml
- CODEOWNERS
- dependabot.yml
- colab-badge.svg
- nbviewer-badge.svg
- Gradient.csv
- Hessian.csv
- ObjectiveValue.csv
- Parameter.csv
- benchmark_import.py
- boehm_JProteomeRes2014.xml
- boehm_JProteomeRes2014.yaml
- data_boehm_JProteomeRes2014.h5
- experimentalCondition_Boehm_JProteomeRes2014.tsv
- measurementData_Boehm_JProteomeRes2014.tsv
- model_Boehm_JProteomeRes2014.xml
- observables_Boehm_JProteomeRes2014.tsv
- parameters_Boehm_JProteomeRes2014.tsv
- simulatedData_Boehm_JProteomeRes2014.tsv
- visualizationSpecification_Boehm_JProteomeRes2014.tsv
- conditions.tsv
- conversion_reaction.yaml
- measurements.tsv
- conditions.tsv
- conversion_reaction.yaml
- create.py
- measurements.tsv
- model_conversion_reaction.xml
- observables.tsv
- parameter_ensemble.tsv
- parameters.tsv
- PEtabJl_module.jl
- swameye2003_conditions.tsv
- swameye2003_measurements.tsv
- swameye2003_model.xml
- swameye2003_observables.tsv
- swameye2003_parameters.tsv
- example_amici_splines_Swameye2003.ipynb
- example_censored.yaml
- experimentalCondition_example_censored.tsv
- measurementData_example_censored.tsv
- model_example_censored.xml
- observables_example_censored.tsv
- parameters_example_censored.tsv
- example_ordinal.yaml
- experimentalCondition_example_ordinal.tsv
- measurementData_example_ordinal.tsv
- model_example_ordinal.xml
- observables_example_ordinal.tsv
- parameters_example_ordinal.tsv
- example_semiquantitative.yaml
- example_semiquantitative_linear.yaml
- experimentalCondition_example_semiquantitative.tsv
- measurementData_example_semiquantitative.tsv
- measurementData_example_semiquantitative_linear.tsv
- model_example_semiquantitative.xml
- observables_example_semiquantitative.tsv
- parameters_example_semiquantitative.tsv
- parameters_example_semiquantitative_noise.tsv
- LR.jl
- SIR.jl
- example_modelSelection.yaml
- experimentalCondition_example_modelSelection.tsv
- measurementData_example_modelSelection.tsv
- model_example_modelSelection.xml
- model_space.tsv
- observables_example_modelSelection.tsv
- parameters_example_modelSelection.tsv
- petab_select_problem.yaml
- amici.ipynb
- censored_data.ipynb
- conversion_reaction.ipynb
- custom_objective_function.ipynb
- example_MPIPool.py
- fixed_parameters.ipynb
- getting_started.ipynb
- gradient_check.ipynb
- history_usage.ipynb
- julia.ipynb
- model_evidence_and_bayes_factors.ipynb
- model_selection.ipynb
- model_selection_network.jpeg
- ordinal_data.ipynb
- petab_import.ipynb
- prior_definition.ipynb
- relative_data.ipynb
- roadrunner.ipynb
- sampler_study.ipynb
- sampling_diagnostics.ipynb
- semiquantitative_data.ipynb
- store.ipynb
- synthetic_data.ipynb
- concept_pypesto.png
- concept_pypesto.svg
- logo.png
- logo.svg
- logo_favicon.png
- logo_github.png
- logo_github.svg
- logo_wordmark.pdf
- logo_wordmark.png
- logo_wordmark.svg
- api.rst
- authors.rst
- changelog.rst
- conf.py
- contact.rst
- containers.rst
- contribute.rst
- deploy.rst
- example.rst
- how_to_cite.rst
- index.rst
- install.rst
- license.rst
- logo.rst
- make.bat
- Makefile
- README.md
- references.bib
- references.rst
- storage_format.md
- using_pypesto.bib
- Dockerfile
- environment
- README.md
- __init__.py
- base.py
- mpi_pool.py
- multi_process.py
- multi_thread.py
- single_core.py
- task.py
- __init__.py
- covariance_analysis.py
- dimension_reduction.py
- ensemble.py
- task.py
- util.py
- __init__.py
- calculator.py
- parameter.py
- problem.py
- solver.py
- __init__.py
- calculator.py
- parameter.py
- problem.py
- solver.py
- util.py
- __init__.py
- calculator.py
- parameter.py
- problem.py
- solver.py
- __init__.py
- base_parameter.py
- base_problem.py
- base_solver.py
- inner_calculator_collector.py
- petab.py
- __init__.py
- amici.py
- base.py
- csv.py
- generate.py
- hdf5.py
- memory.py
- optimizer.py
- options.py
- util.py
- __init__.py
- amici.py
- amici_calculator.py
- amici_util.py
- __init__.py
- base.py
- __init__.py
- base.py
- petab_jl_importer.py
- petabJl.py
- __init__.py
- petab_importer_roadrunner.py
- road_runner.py
- roadrunner_calculator.py
- utils.py
- __init__.py
- aggregated.py
- base.py
- finite_difference.py
- function.py
- petab.py
- pre_post_process.py
- priors.py
- __init__.py
- ess.py
- function_evaluator.py
- refset.py
- sacess.py
- __init__.py
- load.py
- optimize.py
- optimizer.py
- options.py
- task.py
- util.py
- __init__.py
- importer.py
- objective_creator.py
- util.py
- __init__.py
- amici_predictor.py
- task.py
- __init__.py
- base.py
- hierarchical.py
- __init__.py
- approximate.py
- options.py
- profile.py
- profile_next_guess.py
- task.py
- util.py
- validation_intervals.py
- walk_along_profile.py
- __init__.py
- optimize.py
- predict.py
- profile.py
- result.py
- sample.py
- __init__.py
- adaptive_metropolis.py
- adaptive_parallel_tempering.py
- auto_correlation.py
- diagnostics.py
- dynesty.py
- emcee.py
- evidence.py
- geweke_test.py
- metropolis.py
- parallel_tempering.py
- pymc.py
- sample.py
- sampler.py
- util.py
- __init__.py
- method.py
- misc.py
- model_problem.py
- postprocessors.py
- problem.py
- __init__.py
- base.py
- latin_hypercube.py
- prior.py
- uniform.py
- util.py
- __init__.py
- auto.py
- hdf5.py
- read_from_hdf5.py
- save_to_hdf5.py
- __init__.py
- examples.py
- __init__.py
- pymc.py
- variational_inference.py
- __init__.py
- clust_color.py
- dimension_reduction.py
- ensemble.py
- misc.py
- model_fit.py
- observable_mapping.py
- optimization_stats.py
- optimizer_convergence.py
- optimizer_history.py
- ordinal_categories.py
- parameters.py
- profile_cis.py
- profiles.py
- reference_points.py
- sampling.py
- select.py
- waterfall.py
- __init__.py
- C.py
- logging.py
- util.py
- version.py
- __init__.py
- test_aggregated.py
- test_engine.py
- test_ensemble.py
- test_history.py
- test_lazy_result.py
- test_logging.py
- test_objective.py
- test_prior.py
- test_problem.py
- test_roadrunner.py
- test_startpoint.py
- test_store.py
- test_workflow.py
- test_x_fixed.py
- test_censored.py
- test_hierarchical.py
- test_ordinal.py
- test_spline.py
- __init__.py
- test_pyjulia.py
- __init__.py
- test_optimize.py
- test_optimizer_common_interface.py
- __init__.py
- test_amici_objective.py
- test_amici_predictor.py
- test_petab_import.py
- test_petab_suite.py
- test_petabSimulator.py
- test_sbml_conversion.py
- __init__.py
- test_profile.py
- test_validation_intervals.py
- __init__.py
- test_sample.py
- util.py
- __init__.py
- get_test_cases.sh
- test_select.py
- test_test_cases.py
- __init__.py
- test_variational.py
- __init__.py
- test_visualize.py
- __init__.py
- check_git_size.sh
- conftest.py
- run_notebook.sh
- util.py
- .git-blame-ignore-revs
- .gitignore
- .pre-commit-config.yaml
- .readthedocs.yml
- CHANGELOG.rst
- CITATION.cff
- CONTRIBUTE.rst
- INSTALL.rst
- LICENSE
- pyproject.toml
- pytest.ini
- README.md
- requirements-dev.txt
- tox.ini
// repository documentation
Was this content helpful?
(0 ratings)
