Assign micrographs to defocus groups - -

Usage: [-s] def_sort.dat

The optional -s flag uses small fonts in the display.

Input files
Selecting defocus groups
Plotting power spectra
Saving your selections
Defocus spread

The objective is to assign all micrographs to a set of defocus groups using two constraints:
1) Maximize the number of micrographs in each group. SNR increases with the number of particles.
2) Keep defocus values within each group as small as possible (minimize defocus spread). Power spectra of micrographs from the same defocus group should be plotted together, to ensure that their zeroes (minima) line up, and do not cancel out.


Assigning micrographs to defocus groups

A defocus group should contain a set of points that are vertically aligned, as far as that is possible. That is, they should have nearly the same defocus. Group points by dragging the left mouse button to outline a box around them. Selected points will be assigned a new color. You may reselect points as often as you wish.

Plotting power spectra

Once points are colored (assigned), their corresponding power spectra doc files can be plotted, by clicking the right mouse button over a group. This opens a Gnuplot window and a pyplot control window. pyplot reads the file template in the lower left corner of the main window (next to the plot files: button). By default, columns 1 vs 5 are plotted from the power/ctf*** doc files. You can enter a different doc file template in the entry box. You can change which columns are plotted in the pyplot control window. The current set of micrographs being plotted are displayed as plus signs in the main ctfgroup window.

Saving your selections lets you save your selections in a doc file with the same data columns as the def_sort file: Micrographs, Defocus, Defocus_Groups. Under the File menu, select Save as, and specify a file name.

Defocus spread

Enabling the defocus spread plot (under the File menu) displays the envelope computed by setting
defocus spread = max(defocus) - min(defocus) within a group. The X axis for this plot is spatial frequency.

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