Probst, Sebastian: The Moran model with recombination and the long-term evolutionary experiment with E. coli by R. E. Lensk. Modelling, parameter estimation, and simulation. 2018
Inhalt
- Acknowledgements
- Contents
- List of Figures
- List of Tables
- List of Algorithms
- Motivation and overview
- The Moran model with recombination and the partitioning process
- Introduction
- Partitions and Möbius functions
- The model and the genealogical approach
- The partitioning process
- Recombinators and sampling functions
- Restrictions to subsystems
- Duality
- Applications and examples
- Conclusion
- Parameter estimation approach for the Moran model
- Goal and outline
- Moran model parameter estimation problem
- NLP evaluation and details of implementation
- Matrix representation of the generator and evaluation of the ODE system
- From simulation to observation data
- Numerical experiments and results
- Conclusion and prospect
- Modelling and simulating Lenski's long-term evolutionary experiment
- Introduction
- A probabilistic model for the LTEE and its law of large numbers
- Including clonal interference
- Simulation algorithms
- Discussion
- Appendix
- Constrained optimisation
- Multiple shooting approach for parameter estimation problems
- Supplemental figures for Numerical results in Section 2.5
- Results of experiments regarding different test cases
- Time courses of the averaged normalised sampling functions
- Runtimes of experiments regarding different test cases
- Bibliography