| -expand 10 | Surface expansion: value = new z dimension. |
| -threshold 1.6,1 | Calculate a 2D height image using this threshold |
| and direction: 0=bottom up, 1=top down. | |
| -invert | Invert inside & outside (default not). |
| -verbose 7 | Verbosity of output. |
| -datatype u | Force writing of a new data type. |
| -positions 2.5,6.3 | Z positions of surface minimum and maximum (angstrom). |
| -origin 0.8,-10,15.7 | Set the origin (default from input image). |
| -sampling 1.5,1.5,1.5 | Dimension scaling (default 1,1,1 A/pixel). |
| -resolution 0.5,2.3 | Upper & lower sigma bounds (default 3.236,3.236). |
| -Density 0.74 | Density within the surface (default 0.81 Da/A3). |
| -Stdev sd.map | Standard deviation map (default no map). |