| -box 20 | Kernel size for determining local resolution (pixels/voxels). |
| -shell 14 | Shell width for determining radial resolution (pixels/voxels). |
| -criterion DPR | Resolution criterion. |
| FSC = Fourier Shell Correlation (default) | |
| DPR = Differential Phase Residual | |
| SSNR = Spectral Signal-to-Noise Ratio | |
| RAB = R(A+B) figure of merit | |
| -verbose 7 | Verbosity of output. |
| -sampling 1.5,1.5,1.5 | Sampling (A/pixel; a single value can be given). |
| -origin 0.8,-10,15.7 | Set the origin (default from input image). |
| -step 5 | Interval between voxel samples or shells for resolution analysis (pixels, default: 1). |
| -maxresolution 5 | Maximum frequency available in the data (angstrom). |
| -cutoff 0.3 | Resolution cutoff for the criterion chosen |
| (default: FSC: 0.5, DPR: 45, SSNR: 1, RAB: 0.5). | |
| (multiple values can be given for FSC). | |
| -fill 200 | Value too fill the background (non-masked regions; default 0). |
| -pad 1 | Resolution box padding factor (0 = none, default: 2 (box) and 0 (shell)). |
| -edge 10 | Pixels at the edge of the whole map to exclude from analysis (default: half the size of the resolution box). |
| -taper edge | Apply a windowing aperture to box volumes before resolution analysis. |
| none = do not taper | |
| edge = circular mask with smooth edges | |
| hann = hanning window (default) | |
| -nofill | Do not fill values in between (if step > 1). |
| -symmetry D5 | Point group symmetry. |
| -radii 20,130 | Radial limits for shell resolution (default 0, |
| -smooth | Smooth the shell edge. |
| -Mask mask.tif,2 | Mask file to use for limiting the analysis to a defined region |
| and level value to use (optional, default: all but zero). | |