PDEparams: Parameter fitting toolbox for partial differential equations in Python
- Motivation: Partial differential equations (PDEs) is a well-established and powerful tool to simulate multi-cellular biological systems. However, available free tools for validation against data are not established. The PDEparams module provides flexible functionality in Python for parameter estimation in PDE models. Results: The PDEparams module provides a flexible interface and readily accommodates different parameter analysis tools in PDE models such as computation of likelihood profiles, and parametric boot-strapping, along with direct visualisation of the results. To our knowledge, it is the first open, freely available tool for parameter fitting of PDE models. Availability and implementation: The PDEparams module is distributed under the MIT license. The source code, usage instructions and step-by-step examples are freely available on GitHub at github.com/systemsmedicine/PDE_params.
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| Author: | César Parra-RojasORCiD, Esteban A. Hernández-VargasORCiDGND |
|---|---|
| URN: | urn:nbn:de:hebis:30:3-700679 |
| DOI: | https://doi.org/10.1101/631226 |
| Parent Title (German): | bioRxiv |
| Document Type: | Preprint |
| Language: | English |
| Date of Publication (online): | 2019/05/08 |
| Date of first Publication: | 2019/05/08 |
| Publishing Institution: | Universitätsbibliothek Johann Christian Senckenberg |
| Release Date: | 2023/08/30 |
| Issue: | 631226 |
| Page Number: | 5 |
| HeBIS-PPN: | 511532148 |
| Institutes: | Wissenschaftliche Zentren und koordinierte Programme / Frankfurt Institute for Advanced Studies (FIAS) |
| Dewey Decimal Classification: | 0 Informatik, Informationswissenschaft, allgemeine Werke / 00 Informatik, Wissen, Systeme / 004 Datenverarbeitung; Informatik |
| 5 Naturwissenschaften und Mathematik / 57 Biowissenschaften; Biologie / 570 Biowissenschaften; Biologie | |
| Sammlungen: | Universitätspublikationen |
| Licence (German): |  Creative Commons - CC BY-NC-ND - Namensnennung - Nicht kommerziell - Keine Bearbeitungen 4.0 International |
