| returning the number of the input file with the best value. | |
| -reconstructions | Operate on reconstruction parameters rather than micrographs. |
| -all | Reset selection to all particles before other selections (default not). |
| -setasu D3 | Set the views to the asymmetric unit. |
| -select var | Select based on: fom (FOM), err (error between first 2), |
| rmsd (RMSD between first 2), msd or var (variance). | |
| -merge | Merge multiple files, keeping selected particle parameters. |
| -divide 3 | Divide the project into a number of subsets of fields. |
| -Compare | Compare selections. |
| -Statistics | Do selection statistics. |
| -verbose 7 | Verbosity of output. |
| -symmetry D6 | Symmetry: Point group identifier. |
| -fom 0.2,2,1 | FOM cutoff, index and flag to weigh with defocus (default 0,0,0). |
| -Origin 1.2 | Origin deviation to accept (default 10 pixels). |
| -View 13.5 | View deviation to accept (default 180 degrees). |
| -Angle 5.8 | Rotation angle deviation to accept (default 180 degrees). |
| -Magnification 0.03 | Magnification deviation to accept (default 2). |
| -template input.star | Template parameter file to merge in data blocks from other input files. |
| -output file.star | Output parameter file. |