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cryolo_filament_import_relion [2018/12/18 11:57]
twagner
cryolo_filament_import_relion [2018/12/18 13:34]
shaikh
Line 6: Line 6:
 The following illustrates how you import the micrographs and box files into Relion: The following illustrates how you import the micrographs and box files into Relion:
  
-1. Move the box files from ''picked_boxes'' into the ''micrographs'' directory. The box-files and the micrographs should be in the same directory before importing them into Relion.+1. Move the box files from ''picked_boxes'' into the ''micrographs'' directory. The box files and the micrographs should be in the same directory before importing them into Relion.
  
 2. Start Relion 2. Start Relion
  
-3. We start with importing the box files. Select the import action. The //Node type// is //2D/3D particle coordinates//The //input files// pointing to your box files in the ''micrographs'' directory, where the running number is replaced by a *. Press //Run!// {{ ::01.png?500 |}} +3. We will start with importing the box files. Select the //Import// action. Under //Node type//, select //2D/3D particle coordinates//Under //input files//, point to your box files in the ''micrographs'' directory, where the running number is replaced by a *. Press //Run!// {{ ::01.png?500 |}} 
  
-4. Now we import the corresponding mrc files. Select the //Import// action again. The //Node type// is //2D micrographs/tomogram//The //input files// pointing to your mrc files in the ''micrographs'' directory, where the running number is replaced by a *. Press //Run!// {{ ::02.png?500 |}} +4. Now we import the corresponding MRC files. Select the //Import// action again. Under //Node type//, enter //2D micrographs/tomogram//Under //input files//, point to your mrc files in the ''micrographs'' directory, where the running number is replaced by a *. Press //Run!// {{ ::02.png?500 |}} 
  
-5. Now we extract the particles. Select the //Particle extraction// action. Select the //micrographs.star// file for 'micrograph STAR file' and select the //coords_suffix.box// for //Input coordinates//. {{ ::03.png?500 |}}+5. Now we will extract the particles. Select the //Particle extraction// action. For 'micrograph STAR file'select the //micrographs.star// file, and for //Input coordinates// select //coords_suffix.box//. {{ ::03.png?500 |}}
  
 6. Select the //Helix// tab, set //Extract helical segments// to //Yes// and //Coordinates are start-end only// to //No//. Press //Run!//{{ ::03_b.png?500 |}} 6. Select the //Helix// tab, set //Extract helical segments// to //Yes// and //Coordinates are start-end only// to //No//. Press //Run!//{{ ::03_b.png?500 |}}
  
 Now you have extracted your filament particles :-) Now you have extracted your filament particles :-)
cryolo_filament_import_relion.txt ยท Last modified: 2020/04/16 08:45 by twagner