Difference between revisions of "Walkthrough on filament models"
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This walkthrough is a step-by-step guide that teaches how to extract subtomograms from filament-like structures using the ''Dynamo'' filament models. | This walkthrough is a step-by-step guide that teaches how to extract subtomograms from filament-like structures using the ''Dynamo'' filament models. | ||
| − | ==Data == | + | == Data == |
We are going to demonstrate the basic ideas and tools on a synthetic dataset. This data is already available in the catalogue manager. It can be accessed by first opening the catalogue manager using the command: | We are going to demonstrate the basic ideas and tools on a synthetic dataset. This data is already available in the catalogue manager. It can be accessed by first opening the catalogue manager using the command: | ||
<tt>dcm</tt> | <tt>dcm</tt> | ||
| − | After the catalogue manager opens, we create the synthetic tomogram that includes tubular looking objects in the following way: | + | After the catalogue manager opens, we create the synthetic tomogram that includes tubular looking objects (filaments) in the following way: |
[[ File:filament_step_1.png |thumb|center| 700px|step]] | [[ File:filament_step_1.png |thumb|center| 700px|step]] | ||
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[[ File:filament_step_2.png |thumb|center| 700px|step]] | [[ File:filament_step_2.png |thumb|center| 700px|step]] | ||
[[ File:filament_step_3.png |thumb|center| 700px|step]] | [[ File:filament_step_3.png |thumb|center| 700px|step]] | ||
| + | == Annotation == | ||
[[ File:filament_step_4.png |thumb|center| 700px|step]] | [[ File:filament_step_4.png |thumb|center| 700px|step]] | ||
[[ File:filament_step_5.png |thumb|center| 700px|step]] | [[ File:filament_step_5.png |thumb|center| 700px|step]] | ||
| Line 25: | Line 26: | ||
[[ File:filament_step_15.png |thumb|center| 700px|step]] | [[ File:filament_step_15.png |thumb|center| 700px|step]] | ||
[[ File:filament_step_16.png |thumb|center| 700px|step]] | [[ File:filament_step_16.png |thumb|center| 700px|step]] | ||
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Revision as of 10:19, 11 August 2021
This walkthrough is a step-by-step guide that teaches how to extract subtomograms from filament-like structures using the Dynamo filament models.
Data
We are going to demonstrate the basic ideas and tools on a synthetic dataset. This data is already available in the catalogue manager. It can be accessed by first opening the catalogue manager using the command:
dcm
After the catalogue manager opens, we create the synthetic tomogram that includes tubular looking objects (filaments) in the following way:
The catalogue manager will create a catalogue to archive the created tomogram and also the models that we will create around it.
