pipeline:cter:sxgui_cter
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pipeline:cter:sxgui_cter [2019/06/07 13:46] shaikh [Typical usage] |
pipeline:cter:sxgui_cter [2019/06/07 13:49] shaikh [Typical usage] |
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| Outliers in the parameter selected in Histogram & Plot Settings can be removed in three ways: | Outliers in the parameter selected in Histogram & Plot Settings can be removed in three ways: | ||
| - | ; 1. Thresholds can be dragged on the Histogram or Sort Plot. The lower limit is displayed as a blue dotted line, and the upper limit in red. Clicking on either plot will set the lower limit to this value. To set the upper limit, go to the pulldown menu Move Threshold, and select Upper (red). | + | ; 1. Histogram or Sort Plot : Thresholds can be dragged on the Histogram or Sort Plot. The lower limit is displayed as a blue dotted line, and the upper limit in red. Clicking on either plot will set the lower limit to this value. To set the upper limit, go to the pulldown menu Move Threshold, and select Upper (red). |
| - | ; 2. In the table of parameters labeled Unapplied Thresholds, edit the value for the selected parameter. Initially, only the limit selected under the Move Threshold pulldown menu will be editable. To edit both the lower and upper limit, select Edit only under the Move Threshold pulldown. | + | ; 2. Edit Unapplied Thresholds : In the table of parameters labeled Unapplied Thresholds, edit the value for the selected parameter. Initially, only the limit selected under the Move Threshold pulldown menu will be editable. To edit both the lower and upper limit, select Edit only under the Move Threshold pulldown. |
| - | ; 3. Load previously set thresholds, if available, by clicking Load and selecting the threshold text file of the form Trial00_thresholds.txt. To see how to create such a file, see below. | + | ; 3. Load Thresholds file : Load previously set thresholds, if available, by clicking Load and selecting the threshold text file of the form Trial00_thresholds.txt. To see how to create such a file, see below. |
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| In addition to defocus value, another potentially useful metric to sort is Astigmatism Frequency Limit. This number tells us to what resolution CTER was able to fit the experimental power spectrum, when taking astigmatism into account. Micrographs with a poor resolution limit may not be useful for obtaining a high-resolution reconstruction. | In addition to defocus value, another potentially useful metric to sort is Astigmatism Frequency Limit. This number tells us to what resolution CTER was able to fit the experimental power spectrum, when taking astigmatism into account. Micrographs with a poor resolution limit may not be useful for obtaining a high-resolution reconstruction. | ||
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| Clicking on Save Selection will write out the following files: | Clicking on Save Selection will write out the following files: | ||
| - | ; Trial00_micrographs_select.txt : List of selected micrographs | + | ; Trial00_micrographs_ select.txt : List of selected micrographs |
| - | ; Trial00_micrographs_discard.txt : List of selected micrographs | + | ; Trial00_micrographs_ discard.txt : List of selected micrographs |
| - | ; Trial00_partres_select.txt: CTF parameters of the selected micrographs | + | ; Trial00_partres_ select.txt : CTF parameters of the selected micrographs |
| - | ; Trial00_partres_discard.txt: CTF parameters of the deselected micrographs | + | ; Trial00_partres_ discard.txt : CTF parameters of the deselected micrographs |
| - | ; Trial00_thresholds.txt: | + | ; Trial00_thresholds.txt : Applied thresholds for each parameter |
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| The default prefix for output files can be changed from Trial00 by changing the value in the field File Suffix. (Note: should be Prefix) | The default prefix for output files can be changed from Trial00 by changing the value in the field File Suffix. (Note: should be Prefix) | ||
pipeline/cter/sxgui_cter.txt · Last modified: 2019/09/12 18:49 by shaikh
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