Various rendering options are available which control the display in both the 2D and 3D windows. These settings are strictly for visualization purposes only, and therefore have no effect on the structure of the model, spines, etc. Most of these options can be set through the top levelmenu of the main window.
You can choose the shape of rendered objects such as model vertices, connections (edges), and spines from themenu of the main window. See 2D examples below.
|Model vertices shaped as solid ellipses.||Model vertices shaped as hollow ellipses.||Model edges shaped as solid lines.||Model edges shaped as solid frustums.|
You can set various colors of the rendered elements by selecting the menu item. This will bring up a window that contains a list of the elements, controls for RGB (red green blue) and HSV (hue, saturation, value) colorspaces, etc. The use of this window is fairly simple. Worth mentioning however are the Apply and Default buttons. The Apply button will re-render the displays with the new selected colors so that you can preview how it will look. The Default button resets the color of the selected element to a programmed default. Note also that hitting the Cancel button will undo any changes you made to the colors.
In addition to the shape of rendered elements, you can control the coloring scheme from themenu of the main window. See 2D examples below.
|Model vertices with a single color.||Model vertices colored by type.||Model edges with a single color.||Model edges colored by section.|
You can set the size in pixels of lines and points that are rendered in 2D and 3D. See the menu itemfor a list of available sizes.
Another topic worth mentioning is synchronizing the display of the 2D and 3D windows. The menu itemis checked by default. If this item is not checked, then either of the display windows may "skip" a frame if the other display is currently drawing or internal structures are being updated. This will sometimes cause the display to flicker, which may be visually unappealing. Of course ensuring that this doesnt happen may cause some operations to slow down.
TIP: If viewing the display is not important to you for long operations such as tracing or running spine detection on a large cell, you may turn off rendering completely to possibly gain an increase in speed. See the menu for shape options that are labeled as Off.