Synthetic Bistable Switch Analysis

Integrating and inferring parameters from the synthtetic bistable switch described in the paper Controlling spatiotemporal pattern formation in a concentration gradient with a synthetic toggle switch. I. Barbier, R. Perez-Carrasco, Y. Schaerli. BioRxiv (2019).

Description of files

• integration_bs.py Integration, analysis and plotting of the differential equations of the BS dynamical system.
• fitpars.py Inference of the parameters given Flow Cytometry data.
• latticediff.py Definition of spatial grid to implement spatial diffusion
• flow_load.py Import of the summarised flow data into a pandas dataframe
• yolcolors.py Definition of the color palettes used

Prerequisites

All the dependencies are listed in requirements.txt. The only nonstandard dependendcy is the PyDream MCMC

pip install pydream

Author

• Ruben Perez-Carrasco - 2piruben

See also the list of contributors to the main manuscript

License

This project is licensed under the MIT License - see the LICENSE.md file for details