Matlab Simulators from SYSTEMS BIOLOGY: Simulation of Dynamic Network States
PART I: Simulation of Dynamic States
PART III: Metabolism
Chapter 10 Glycolysis Simulator
Chapter 11 Glycolysis PPP Simulator
Chapter 12 Glycolysis PPP AMP Salvage Simulator
Place all three files (ODE, Sim, and Model) into one folder. The ODE .m file contains the differential equations for simulation. The model .mat file contains all the information on the parameters for the model. The Sim .m file is the script that loads the two and runs the ODE solver. Perturbations and changes are typically made in the Sim .m file.