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Simulate Responses to Biological Variability and Doses

Simulate biological variability to compare animal species, strains, or experimental conditions, and investigate different dosing strategies

Functions

sbiosimulateSimulate SimBiology model
createSimFunctionCreate SimFunction object
sbiodoseConstruct dose object
adddoseAdd dose object to model
sbiovariantConstruct variant object
addvariantAdd variant to model
sbiosteadystate Find steady state of SimBiology model
sbioacceleratePrepare model object for accelerated simulations
sbiosampleparametersGenerate parameters by sampling covariate model (requires Statistics and Machine Learning Toolbox software)
sbiosampleerrorSample error based on error model and add noise to simulation data
sbioplotPlot simulation results in one figure
sbiosubplotPlot simulation results in subplots
sbiotrellisPlot data or simulation results in trellis plot
sbioensemblerunMultiple stochastic ensemble runs of SimBiology model
sbioensembleplotShow results of ensemble run using 2-D or 3-D plots
sbioensemblestatsGet statistics from ensemble run data

Classes

SimFunction objectFunction-like interface to execute SimBiology models
ScheduleDose objectDefine drug dosing protocol
RepeatDose objectDefine drug dosing protocol
Variant objectStore alternate component values
SimData objectSimulation data storage
Configset objectSolver settings information for model simulation
SolverOptionsSpecify model solver options
RuntimeOptionsOptions for logged species
CompileOptionsDimensional analysis and unit conversion options

Examples and How To

Simulate Biological Variability of the Yeast G Protein Cycle Using the Wild-Type and Mutant Strains

This example shows how to create and apply a variant to the G protein model of a wild-type strain.

Simulate Model of Glucose-Insulin Response with Different Initial Conditions

This example shows how to simulate the glucose-insulin responses for the normal and diabetic subjects.

PK/PD Modeling and Simulation to Guide Dosing Strategy for Antibiotics

This example shows how to perform a Monte Carlo simulation of a pharmacokinetic/pharmacodynamic (PK/PD) model for an antibacterial agent.

Concepts

Doses

Use doses to model different dosing regimens.

Variants

Use variants to store alternate parameter values and initial conditions of a model.

Model Simulation

Simulate dynamic models using various solvers.

Choosing a Simulation Solver

SimBiology® uses a solver function to compute solutions for a system of differential equations at different time intervals during model simulation.

Accelerating Model Simulations and Analyses

You can accelerate the simulation or analysis by converting the model to compiled C code.

Troubleshooting

Troubleshooting Simulation Problems

Troubleshoot SimBiology simulation errors, such as the Integration tolerance not met error, by changing the solver or tolerances.

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