| -cosine | Calculate the cosine of the phase angle difference. |
| -amplitude | Weight the phase difference with the amplitude product. |
| -center | Center phase difference map and output it. |
| -flip | Flip phases based on phase difference map and modify second image. |
| -verbose 7 | Verbosity of output. |
| -datatype short | Force writing of a new data type (default float). |
| -origin 0.8,-10,15.7 | Set the origin of both images (default from input images). |
| -resolution 4.5,130 | Resolution (default 0 - 10000 angstrom). |