CellDesigner Help

SBW Connection

If you are interested in time evolving simulation and analysis on biochemical networks, we recommend you to install the Systems Biology Workbench (SBW) and SBW-powered software first.

Go and see http://sys-bio.org/ to download the SBW.

If SBW has been installed on your machine, you can work directly from CellDesigner with other SBW compliant applications. SBW menu in the CellDesigner Main Window is enabled when SBW is available.

To download and install SBW

  1. Access http://sys-bio.org/
  2. Download the SBW.

To confirm the installation of SBW

  1. To check if the SBW is properly installed, start CellDesigner and open a model. The SBW menu in the Menu should be activated if your setup has correctly been done.
  2. Check if there are any simulators listed in the SBW menu.
  3. If you have installed the simulators of your choice correctly, they are listed under SBW menu.

    4. Jarnac Simulation Service appears if Jarnac has been installed. The others are default-installed.

To register SBW

  1. Open a file
  2. In the Menu, select SBW, then Register with SBW.

To call other SBW modules

  1. Open a file.
  2. In the Menu, select SBW.
  3. See that the menu items offered by the SBW are listed.
  4. Select an appropriate menu item from the list.

    5. Please refer to the SBW documents about the function of each menu item.

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