Systems biology parameter estimation GUI

2021 Open Call project, 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.

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