calibr8

calibr8 is a Python toolbox for likelihood-based calibration modeling and Bayesian inference. It supports uni- and multivariate problems, continuous & discrete distributions and includes ready to use models for many non-linear problems. It integrates with PyMC for advanced Bayesian inference.

13
mentions
2
contributors

What calibr8 can do for you

PyPI version pipeline coverage documentation DOI

calibr8

This package provides templates and functions for performing likelihood-based calibration modeling. To see implementation examples & excercises, you can go to notebooks/.

Installation

calibr8 is released on PyPI:

pip install calibr8

Documentation

Read the package documentation here.

Usage and Citing

calibr8 is licensed under the GNU Affero General Public License v3.0.

When using calibr8 in your work, please cite the Helleckes & Osthege et al. (2022) paper and the corresponding software version.

Note that the paper is a shared first co-authorship, which can be indicated by 1 in the bibliography.

@article{calibr8Paper,
  doi       = {10.1371/journal.pcbi.1009223},
  author    = {Helleckes$^1$, Laura Marie and
  	       Osthege$^1$, Michael and
	       Wiechert, Wolfgang and
	       von Lieres, Eric and
	       Oldiges, Marco},
  journal   = {PLOS Computational Biology},
  publisher = {Public Library of Science},
  title     = {Bayesian and calibration, process modeling and uncertainty quantification in biotechnology},
  year      = {2022},
  month     = {03},
  volume    = {18},
  url       = {https://doi.org/10.1371/journal.pcbi.1009223},
  pages     = {1-46},
  number    = {3}
}

@software{calibr8version,
  author    = {Michael Osthege and
               Laura Helleckes},
  title     = {JuBiotech/calibr8: v6.5.2},
  month     = mar,
  year      = 2022,
  publisher = {Zenodo},
  version   = {v6.5.2},
  doi       = {10.5281/zenodo.4127012},
  url       = {https://doi.org/10.5281/zenodo.4127012}
}

Head over to Zenodo to generate a BibTeX citation for the latest release.

Keywords
Programming languages
  • Jupyter Notebook 97%
  • Python 3%
License
  • AGPL-3.0-or-later
</>Source code
Packages
pypi.org

Participating organisations

Forschungszentrum Jülich

Reference papers

Mentions

Contributors

LH
Laura Marie Helleckes
Developer
Forschungszentrum Jülich GmbH
MO
Michael Osthege
Developer
Forschungszentrum Jülich GmbH