Differences

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--- relion [2024/08/29 07:11] – Luc Bonnefond
+++ relion [2024/08/29 07:12] (current) – Luc Bonnefond
@@ Line 35: / Line 35: @@
 <code>relion_estimate_gain --i Import/job001/movies.star --j 8 --max_frames 10000 --random true --o estimated_gain.mrc</code>
 Explanation of options:
-  * <code>--j</code>: number of thread
+  * <quote>--j</quote>: number of thread
-  * <code>--max_frames</code>: target number of frames to average (rounded to movies)
+  * <quote>--max_frames</quote>: target number of frames to average (rounded to movies)
-  * <code>--random</code>: randomize the order of input movies before taking subset
+  * <quote>--random</quote>: randomize the order of input movies before taking subset
 === Job Relion/Motion correction ===
@@ Line 53: / Line 53: @@
 <code>relion_display --i Micrograph.mrc --scale 0.2 --lowpass 10 --angpix 0.862 --sigma_contrast 3</code>
 Explanation of options:
-  * <code>--i</code>: Input; can be a single micrograph (.mrc) or a stack (.star), but not a movie (.eer, .tif)
+  * <quote>--i</quote>: Input; can be a single micrograph (.mrc) or a stack (.star), but not a movie (.eer, .tif)
-  * <code>--scale</code>: display size (0.2 = 20% of original)
+  * <quote>--scale</quote>: display size (0.2 = 20% of original)
-  * <code>--lowpass</code>: lowpass filtering (5 to 10 is a good range)
+  * <quote>--lowpass</quote>: lowpass filtering (5 to 10 is a good range)
-  * <code>--angpix</code>: angströms/pixel from the camera (0.862 for KriosI at x81000, 0.901 for KriosII and 0.729 for Glacios)
+  * <quote>--angpix</quote>: angströms/pixel from the camera (0.862 for KriosI at x81000, 0.901 for KriosII and 0.729 for Glacios)
-  * <code>--sigma_contrast</code>: contrast value to adjust (1 to 4, depending on the image, lowpass,...)
+  * <quote>--sigma_contrast</quote>: contrast value to adjust (1 to 4, depending on the image, lowpass,...)