cryolo_filament_import_relion []

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====== How to import crYOLO filament coordinates into Relion ======
After the picking of filaments with crYOLO is done, one might want to import them into Relion. In this example I assume the following:
  * The folder ''micrographs'' containing your images. In this example the filenames are //Actin-ADP-BeFx_NUMBER.mrc//.
  * Furthermore I assume you have a folder ''picked_boxes'' which contain your box files in helicon format. 

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.

2. Start Relion

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. 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 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 |}}

Now you have extracted your filament particles :-)
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