Open Call project, 2021 Systems biology parameter estimation GUI
Total developer time: 2 months
Contact person: Dr. Sven Sahle, Bioquant, COS
Outline
The group has developed a user friendly tool for editing and simulating spatio-temporal models based on PDEs in systems biology: Spatial Model Editor.
They have also implemented ad-hoc scripts to perform parameter estimation by comparing simulations to measured fluorescence imaging data. The performance, maintainability and packaging of these scripts was improved in a previous small scale SSC development project (Systems biology simulation).
The goal of this project is to extend this functionality to more general use cases, and integrate it into the user-friendly graphical user interface.
SSC Role
- Refactor and expand existing Python implementation
- Prototype the user interface in close collaboration with research group and users of existing software
- Integrate this functionality into the C++/Qt GUI code
Results
- Parameter fitting implemented in latest 1.3.0 release
