SimBiology 3.1

Building a Model

SimBiology lets you create models that include compartments, species, parameters, reactions, events, rules, kinetic laws, and units.

You can create a model by:

• Dragging and dropping predefined blocks in the block diagram editor
• Entering equations and relevant parameters into a tabular interface
• Using SimBiology command-line functions
• Using the model wizard to create pharmacokinetic models

You can configure the appearance of any predefined compartment, species, or reaction block. Customized blocks can be stored in libraries or used to create standardized blocks or elements. All model components can have URLs, tags, or notes added to their description.

Variants are collections of alternate values for parameters that you can apply to a model during simulation. This enables you to study various values for model components without creating new models.

SimBiology lets you work with built- in kinetic laws and units or create your own. Both built-in and user-defined kinetic laws are stored in libraries for easy reuse and distribution.

Data from external sources can be associated and saved with a SimBiology project. You can import, visualize, and use the external data for fitting parameters. Data can be imported from a Microsoft® Excel® file, text file, MAT- file, or the MATLAB workspace.

The external data panel in SimBiology. Data from external sources can be imported, visualized, and used for fitting parameters. Click on image to see enlarged view.