You can manage the complexity of large .transform files adding comment text to:
•The Comment field of Note items. These are added to the center pane by right clicking and selecting Note from the menu. You can also set an Arrow direction and a Color. If you right click on an existing item, the Note item will be placed pointing to that item, if there is space. The comment will be shown as a tooltip when you hover over the Note item.
•The Comment tab of Input, Transform or Output items. Check View>Show Comments to show these comments in the center pane. The comment will be shown as a tooltip when you hover over the item.
•In the Notes window that is displayed when you select File>Notes... from the main menu.
You can also group related items in the center pane to show that they are related.