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PEtab is a data format for specifyingparameter estimation problems in systems biology. This repository providesthepetab Python package for reading, writing and validating PEtab files.

Documentation of thepetab Python package is available athttps://libpetab-python.readthedocs.io/en/latest/.Documentation of the PEtab format in general is available athttps://petab.readthedocs.io/en/latest/.

The PEtab library is available onpypiand the easiest way to install it is running

pip3 install petab

It will require Python>=3.10 to run. (We are following thenumpy Python support policy).

Development versions of the PEtab library can be installed using

pip3 install https://github.com/PEtab-dev/libpetab-python/archive/main.zip

(replacemain by the branch or commit you would like to install).

When setting up a new parameter estimation problem, the most useful tools willbe:

• ThePEtab validator,which is automatically installed using Pythonentrypoints to be available as a shell command from anywhere, calledpetablint

• petab.create_parameter_dfto create the parameter table, once you have set up the model,condition table, observable table and measurement table

• petab.create_combine_archiveto create aCOMBINE Archive from PEtabfiles

Examples for PEtab Python library usage:

• Validation
• Visualization

If you have any questions or problems with this package, feel free to post themat our GitHubissue tracker.

Contributions and feedback to this package are very welcome, see ourcontribution guide.