Examples

This section provides comprehensive examples of using UQ-PhysiCell for uncertainty quantification, sensitivity analysis, parameter sampling, Bayesian optimization (BO), and Approximate Bayesian Computation(ABC). The examples progress from basic model setup to advanced analysis workflows.

• Example 1: Context Setup and Internals — Educational Walkthrough
• Example 2: Data Storage Modes — Precomputed QoIs vs Raw MCDS
• Example 3: Global Sensitivity Analysis — Sobol with Multi-task Parallelization
• Example 4: Global Sensitivity Analysis — Sobol with MPI
• Example 5: Local Sensitivity Analysis — One-At-a-Time (OAT) Sampling
• Example 6: Global Parameter Sampling — Latin Hypercube Sampling (LHS)
• Example 7: Model Calibration — Bayesian Optimization
• Example 8: Model Calibration — Approximate Bayesian Computation (ABC-SMC)
• Example 9: Model Calibration — Bayesian Optimization with Warm Start
• Example 10: Rule Inactivation Sensitivity Analysis — Pancreatic Cancer Invasion Model