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simbiology

Open SimBiology desktop for modeling and simulation

Syntax

simbiology
simbiology(modelObj)
simbiology(File)

Input Arguments

modelObjSimBiology® model object or an array of model objects.
FileString specifying a file name or path and file name of an sbproj file. If you specify only a file name, that file must be on the MATLAB® search path or in the MATLAB Current Folder.

Description

simbiology opens the SimBiology Desktop, which lets you:

  • Build a SimBiology model by representing reaction pathways and entering kinetic data for the reactions.

  • Import or export SimBiology models to and from the MATLAB workspace or from a Systems Biology Markup Language (SBML) file.

  • Modify an existing SimBiology model.

  • Simulate a SimBiology model using individual or ensemble runs.

  • View results from the simulation.

  • Perform analysis tasks such as sensitivity analysis, parameter and species scans, and calculation of conserved moieties.

  • Import and plot data for analysis tasks.

  • Create and/or modify user-defined units and unit prefixes.

  • Create and/or modify user-defined kinetic laws.

simbiology(modelObj) opens the SimBiology desktop with modelObj, a SimBiology model object. If a project is open in the desktop, the simbiology function adds modelObj to the project.

simbiology(File) opens the project specified by File in the SimBiology desktop. File is a string specifying a file name or path and file name of an sbproj file. If you specify only a file name, that file must be on the MATLAB search path or in the MATLAB Current Folder. If a project is open in the desktop, the software replaces it with the new project, after prompting you to save any changes.

The Parent property of a SimBiology model object is set to the SimBiology root object. The root object contains a list of model objects that are accessible from the MATLAB command line and from the SimBiology desktop. Because both the command line and the desktop point to the same model object in the Root object, changes you make to the model at the command line are reflected in the desktop, and vice versa.

Note

The sbioreset function removes all models from the root object. Therefore, the sbioreset function removes all models from the SimBiology desktop.

Examples

Create a SimBiology model in the MATLAB workspace, and then open the SimBiology desktop with the model:

modelObj = sbiomodel('cell');
simbiology(modelObj)

Introduced in R2009a

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