• Pointer (arrow): Default tracking mouse movement and moving existing objects around.
• Selection (dashed square): Selection of regions for statistics or cropping.
• Measure (length bar): Measure distances between mouse clicks.
• Boxing (box and circle): Turn on particle picking.
• Filament (linked nodes): Turn on filament picking.
• Tomography (dot): Turn on tomography.
• Tomography (multiple dots): Select all markers in an image for dragging.
• Crystallography (array of dots): Analyze a crystallographic diffraction pattern.
• Helix (helical pattern): Analyze a helical diffraction pattern.
• Models (linked components): Turn on modeling with components and links.
• Help: Link to browser-based documentation.

Analysis tools:

The selection tool opens a dialog box with a choice of the shape of the region of interest. This can be used to calculate the statistics within that region. Alternatively, the image can be cropped to the selected region with the "Image/Crop" menu item. Although the oval and spherical shapes will work with cropping, a full rectangular image is always produced.

The measurement tool reports the distance between mouse clicks in real space units. This means that the pixel size is used to estimate real distances between successively selected pixels. It is therefore important to have the correct pixel size specified.