Worked Examples

Contents:

• Geometry Optimisation Example
  • Environmental set up and installation
  • Base model and problem overview
  • directory set up
  • Copy the base topas files
  • Creating GenerateTopasScript.py
  • Creating RunOptimisation.py
  • Editing GenerateTopasScript.py
  • Creating TopasObjectiveFunction.py
  • Running the example
  • Interpreting the results
  • Comparison with Nelder-Mead optimiser
  • Comparison with ground truth data
  • Improving these results
• Phase space optmisation example
  • Directory set up
  • Creating GenerateTopasScript.py
  • Creating RunOptimisation.py
  • Editing GenerateTopasScript.py
  • Create TopasObjectiveFunction.py
  • Running the example
  • Analyzing the results
  • NelderMead Optimiser
  • Comparing the results:
• Handling noisy data
  • Setup example
  • Generating simulations with different level of noise
  • Set up a plotting function
  • Assessing noise in the objective function
  • Passing the newly constructed kernel to TopasOpt
  • Assessing optimiser performance
• Development example
  • Set up base directory
  • Limitations
  • Results