Examples¶
We provide a collection of example notebooks to get a better idea of how to use pyPESTO, and illustrate core features.
The notebooks can be run locally with an installation of jupyter
(pip install jupyter
), or online on Google Colab or nbviewer, following
the links at the top of each notebook.
At least an installation of pyPESTO is required, which can be performed by
# install if not done yet
!pip install pypesto --quiet
Potentially, further dependencies may be required.
The following examples cover typical use cases and should help get a better idea of how to use this package:
- Rosenbrock banana
- Conversion reaction
- Fixed parameters
- AMICI Python example “Boehm”
- Model import using the Petab format
- Storage
- A sampler study
- MCMC sampling diagnostics
- Optimization with Synthetic Data
- Standard Optimization
- Synthetic Optimization
- Definition of Priors:
- Save and load results as HDF5 files