-Even | Output evenly distributed views. |
-Asymmetricunit | Output all views within asymmetric unit. |
-Grid | 10 Output all views within angular distance from a given reference view. |
-Related | Output all symmetry related views for a given reference view and symmetry. |
-Radial | 75,75,75 Generate a view vector for each particle extending from the given point. |
-Top | 200 Assing one of the two top views (up/down) for each particle, depending if the particle is above or below the chosen Z slice. |
-Segment | Generate a view vector for each particle extending from the closest point on a line segment (defined as a filament in the input.star). |
-Filament | 100,10,5 Generate views covering a filament with a given radius, helical rise & twist (use with option -symmetry) |
| and input.star defining the ends of a filament. |
-Random | 100 Generate a number of random views. |
-randomizealpha | Randomize the angle around view vector (alpha). |
-symmetry | C10 Symmetry to use (default: C1 symmetry). |
-recfile | 3d.map Associate views with this reconstruction filename. |
-angle | 2 Angular sampling stepsize for theta and phi (default: 45 degrees). |
-radius | 75 Place particles views at given radius (default 0). |
-shift | 5 Shift particles by given amount along the view vectors (default 0). |
-verbose | 7 Verbosity of output. |
-reference | 0,0.618,1,0 Reference view (dafault: 0,0,1,0) |
-sampling | 1.5,1.5,1.5 Sampling (A/pixel; a single value can be given). |
-origin | 110,50,44 View origin (default: 0,0,0). |
-discardz | 20 Discard views with Z locations further from the Z origin (pixels). |
-select | 1 Process only particles with this selection number (default: all). |
-invert | Invert views in outputfile. |
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| Chimera parameters: |
-diameter | 5 Chimera marker diameter (default: 2) |
-length | 100 Chimera link length (default: 10). |
-thickness | 5 Chimera link thickness (default: 2) |
-color | 0,0,1 Chimera marker & link color in RGB (default: 1,1,1). |
-fomcolor | 0.2,0.3 Chimera marker & link coloring range from blue to red based on particle FOM. |
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