About

Summer School in Computational Biology @ UC

Modelling prostate cancer growth using a phase-field model.

Research team: Oliver, Hygor, Diana, Carlos, Milan, Mauricio & Rui.

Files:

• src/ ~ source files
  • ProstProject.py ~ full numpy/scipy implementation
  • src/loopimp.py ~ explicit loop implementation
• notebooks/ ~ jupyter notebooks
  • compare_speed.ipynb ~ comparing the computational time between methods
  • parvariation.ipynb ~ implementation with OpenCV convolution
  • simulation_init_par.ipynb ~ simulation with the appropriate set of parameters
• data/ ~ graphs & data files
  • result_comp.png ~ accuracy comparison between the convolution method & explicit loops
  • speed_comp.png ~ computational efficiency

Logbook

1st day:

• Laplace Operator;
• Euler’s Method for time integration;
• Presented and implemented the phase-field basic model.

2nd day:

• Implemented the complete model including the nutrient field.

3rd day:

• Meeting for discussions about the preliminary results.

4th day:

• Search for the right set of parameters in order to reproduce the paper results.

Results

Comparing convolution and explicit loops