| -verbose 7 | Verbosity of output. |
| -datatype u | Force writing of a new data type. |
| -sampling 1.5,1.5,1.5 | Sampling of input images (A/pixel; a single value can be given). |
| -resolution 20 | Resolution limit (angstrom, default Nyquist). |
| -ratio 2.5 | Radial sampling to Cartesian sampling ratio (default 1). |
| -scale 1.2 | Scale or magnification of reconstruction compared to original images (default 1). |
| -size 100,120,90 | Size of reconstruction (default from images). |
| -cutoff 0.3 | Resolution cutoff for FRC (default 0.5). |
| -micrograph 56 | Micrograph number to use for the resolution test (first = 0). |
| -fast 10 | Fast mode, only use micrographs within the given angle from the selected one (default all). |
| -CTF flip | Apply CTF correction to images before reconstruction (default not). |
| -wiener 0.15 | Wiener factor for CTF correction (default 0.2). |
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