Examples ======== This section contains worked examples for different model reduction tasks. Examples are organized by scientific domain. Michaelis-Menten Model Reduction -------------------------------- This example demonstrates how to reduce a simple Michaelis-Menten model using QSSA. .. toctree:: :maxdepth: 1 notebooks/michaelis_menten Viral Spread ------------ This ecological example defines and solves a viral spread model using SIR dynamics. .. toctree:: :maxdepth: 1 notebooks/sir_model_reduction Gene Expression --------------- This example shows how to analyze and reduce gene expression models. .. toctree:: :maxdepth: 1 notebooks/gene_expression_analysis BioCRNPyler Integration ----------------------- This example demonstrates how to use AutoReduce with BioCRNPyler for synthetic biology models. .. toctree:: :maxdepth: 1 notebooks/biocrnpyler_interface Parameter Sensitivity --------------------- This canonical example computes local parameter sensitivities for a symbolic ODE model. .. toctree:: :maxdepth: 1 notebooks/parameter_sensitivity QSS Control Input ----------------- This canonical example derives a one-state quasi-steady-state reduction for a singularly perturbed control-input model. .. toctree:: :maxdepth: 1 notebooks/qss_control_input Derivation of Hill Functions ---------------------------- This biological example derives a Hill-function expression from fast dimer and promoter-binding reactions. .. toctree:: :maxdepth: 1 notebooks/hill_function_derivation Each example notebook contains detailed explanations and can be downloaded from the `GitHub repository `_.