The editor window provides syntax-highlighting. The different types of keywords are automatically put in a different color as you type, for easy visual inspection of your network definition.
The Undo/Redo functionality keeps track of your changes and lets you go back many steps in the edit history.
When you drag the edges of one of the internal windows, the other windows co-resize automatically.

An explanation of SIM-plex's menus:

• File: normal New/Open/Save/Close functionality for the editor.
   
• Edit: Undo/Redo and Cut/Copy/Paste functionality for the editor.
   
• Simulation:

  Simulate (choosing this menu is equivalent to pressing F5): This will parse the network definition text and reports an error if necessary. If there were no errors, a simulation is performed and the resulting profiles are drawn in the Single-Plots and Combined-Plot windows. Also when you choose "Simulate", a copy of the current network definition is appended to the file log.txt, located in the home folder of SIM-plex and created if not yet present. This makes it easier to track changes you made in your network definition, and lets you return to previous versions of your definition.   Export simplified definition: This will first re-parse the network definition text that is currently in the editor window and if necessary report an error. If there were no errors, it exports an more simple network definition that is stripped of transform-statements, prod- and virtprod-statements. (The equations that a virtprod implies are included though).   Export equations: This will first re-parse the network definition text that is currently in the editor window and if necessary report an error. If there were no errors, it exports the mathematical equations that are implied by the network definition. The first will be a header preceding the equations, for example //x0=A, x1=B    In this example x0 stands for the component with name A, etc. In the equations that follow this line, the  stepUp  and  stepDown  functions are used. These are Heaviside stepfunctions: stepUp(x,q)   = stepDown(x,q) =   "Export states to textfile", "Export Single Plots to image" and "Export Combined Plot to image" are inactive when SIM-plex is started, but they get activated as soon as a successful simulation is performed. They will always export the results of the last simulation, also if the network definition text would already have changed.   Export states to textfile: This command exports the results of the last simulation to a Tab-delimited textfile. The first row wild hold the names of the components and the following rows will hold a productamount for each timepoint requested via SIM-plex's "timepoints" statement.   Export Single Plots to image: This command exports the results of the last simulation, as drawn in the Single Plots window, to an image. Export Combined Plot to image: This command exports the results of the last simulation, as drawn in the Combined Plot window, to an image. [Export of plots is currently not yet implemented. In MS Windows, you can use Alt+PrintScreen to copy what you see on the screen to the Clipboard, and paste it in a graphical editor.]

• View:

  Show thresholds: Toggles the drawing of thresholds in the Plot window.   Show timepoints: Toggles the drawing of the time-axis in the Plot window.   Scale to global maximum: Toggles the vertical scale in the Plot window: "each product should scale to its own maximum reached value" versus "all products should scale to the maximum amount reached by any of the products in the simulation".   Set fixed height for Single Plots: If you set this to (its default value) zero, the subplots in the Single-Plots window will scale to divide the vertical space equally among each other. But they may become too small when there are many subplots. In that case you can set a fixed height. A scrollbar will then appear to navigate through all the subplots.   Alternative window configuration: Toggles between a configuration with a tall Editor window at the left, and a configuration with a wide Combined-Plot window at the bottom:   versus  .

• Help: Shows a quick example illustrating some of the statements, and gives information about SIM-plex and its authors.