TomoJ interface. A: ImageJ user interface as presented after launching TomoJ. Note that the toolbar differs from the standard ImageJ toolbar. The standard toolbar can be regained by using the "switch toolbar" button on the TomoJ interface. B: TomoJ interface divided into four regions. Top: global menus. Bottom (left to right): the regions devoted to automatic alignment, tools that require point selections, and 3D reconstruction. C: Data set window. The header includes the tilt-series name, the number of the visualized image in the total stack, the total number of images in the stack, the tilt angle corresponding to the visualized image, the image byte type, and the total memory occupied by the stack.