insilicoIDE 0.1.1 Getting Started
Edit Module
A module is characterized by States, Parameters, Functions, which represent dynamical variables, static values and functions, respectively. There are two ways to use States in this version of insilico IDE. One is to use in ordinary differential equations. Thus Sates are accompanied by mathematical expression defining the vector field. Anothere way to use States is to express status of agent in a rule-based simulation. In this case, time evolusion rule must be define on the States.
To edit these properties, select "Edit Module" in a popup context menu appeared by right click on a module. Then a property editor appears (Fig. 8). In this editor there are several tabs corresponding to States, Parameters, Functions and Input Ports. To defin States and Functions, users need to describe equations. In a case of States, at first you need to select on state in a list, and click "Edit State Update Rule". Then window shown in Fig. 9 appears. In a panel at lower right, using a popup menu by right click on "ROOT" or equations, you can edit them. The equation must describe as like C programming. Users can use IF structure to make conditional equations. Only parameters, functions and input ports that are already defined are allowed to be used in equations.
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| Fig. 8: Porperty editor | Fig. 9: Equation editor |
Geometrical Information
A module also can be characterized by geometrical information, such as morphological data, position and direction. Morphological data can be assigned by commands "Set Patch" and "Set Voxel Data" in the popup context menu appeared by the right click on a module.
After setting Patch or Voxel data, you can view the model with morphological data by "View Structure" in the popup context menu (FIg. 10).
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| Fig. 10: Morphologicl data view |