Difference between revisions of "Particle extraction"

From Dynamo
Jump to: navigation, search
(Created page with "Particle extraction is the process of using a set of positions (and possibly orientations) defined on a set of tomograms to create a set of subtomograms files. This set is rep...")
 
Line 16: Line 16:
 
==On each model separately==
 
==On each model separately==
  
When you are manually creating a model in one of the browsers, XXXXX
+
When you are manually creating a model in one of the browsers, the real workflow in an actual project involving many tomograms and modeles would be to just click the necessary points to define the user input of the model, store it in the catalogue, and move to the next model.

Revision as of 16:42, 21 March 2016

Particle extraction is the process of using a set of positions (and possibly orientations) defined on a set of tomograms to create a set of subtomograms files. This set is represented by a data folder containing one file for each cropped subtomogram, and possibly a table retaining the metadata. Data folder and table can directly be used for subtomogram alignment

Using the catalogue

Select the tomograms in which you have models containing particles and click on the menu tab Crop particles. A new GUI will popup, with a list of models. You can then select the models that already contain crop points). Then click on Create list and -> Crop particles

From the command line

You might just use the command dtcrop.

On a single tomogram

On a single tomogram

On each model separately

When you are manually creating a model in one of the browsers, the real workflow in an actual project involving many tomograms and modeles would be to just click the necessary points to define the user input of the model, store it in the catalogue, and move to the next model.