matlab-simulate-simbiology-model

What problem does it solve?

This Skill helps you accurately simulate SimBiology models and produce reliable time-course outputs by handling common pitfalls that lead to incorrect results or simulation failures.

Core Features & Use Cases

• Deterministic and stochastic simulation: Run ODE-based simulations or stochastic (SSA) trajectories for systems with noise or low molecule counts.
• Scenario and what-if exploration: Compare dose levels, variants, and parameter changes using SimBiology.Scenarios.
• Sensitivity analysis workflows: Quantify influential parameters using Sobol, Morris, or local sensitivity via configset settings.
• Guardrails for SimBiology correctness: Enforce required rules for observables, logging configuration, SSA MassAction constraints, scenario construction, sensitivity option resets, wall-clock timeouts, and unit conversion (TimeUnits).

Quick Start

Ask the agent to simulate the attached SimBiology model for 24 hours using the appropriate solver, then report the Drug amount and any key observables you request.