6. Test cases¶
In the following, we showcase CobraMod’s functionalities in two test cases:
- 6.1. Analysing shikimate production using an E. coli core model
- 6.1.1. Introduction
- 6.1.2. Loading CobraMod, the E. coli model and setting the growth medium for the simulations
- 6.1.3. Adding the shikimate pathways
- 6.1.4. Creating biomass reactions for the two E. coli strains
- 6.1.5. Simulating shikimate production in the two E. coli strains
- 6.1.6. Visualization with Escher
- 6.1.7. Supplementary Information: Approximation of biomass compositions
- 6.1.8. References
- 6.2. Adding a synthetic homoserine cycle to a genome-scale model of E.coli to reproduce in silico experiments
For suggestions or contributions, please contact the maintainers.