Changes for page 3. Tutorials and manuals

Last modified by puchades on 2021/12/07 11:18
From version 11.1
edited by puchades
on 2020/09/21 16:10
Change comment: There is no comment for this version
To version 15.1
edited by puchades
on 2020/09/21 16:14
Change comment: There is no comment for this version

Summary

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Content
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1 1  == (% style="color:#c0392b" %)Video tutorial(%%) ==
2 2  
3 -== ==
3 +== ==
4 4  
5 5  == (% style="color:#c0392b" %)Preparation of the image series(%%) ==
6 6  
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20 20  
21 21  == (% style="color:#c0392b" %)QuickSTEPS:(%%) ==
22 22  
23 -== Open //QuickNII// and load your images ==
23 +Open the //QuickNII// program from the .exe file. Once the program opens, click the **Manage data button** and load your XML file (or JSON file if you have one from before)
24 24  
25 -Open the //QuickNII// program from the .exe file. Once the program opens, click the **Manage data button** and load your XML file.
26 -
27 27  === **Anchoring procedure** ===
28 28  
29 29  The alignment procedure consists of two main tasks:
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48 48  
49 49  == (% style="color:#c0392b" %)**Nonlinear adjustment with VisuAlign**(%%) ==
50 50  
51 -**[[image:VisuAlign_illustration.png]]**
49 +**[[image:Collabs.quint.Image registration to reference atlas using QuickNII.WebHome@VisuAlign_illustration.png]]**
52 52  
53 - A detailed //VisuAlign //user manual [[can be found here>>url:https://www.nitrc.org/docman/?group_id=1426]].
51 + A detailed //VisuAlign //user manual [[can be found here>>https://www.nitrc.org/docman/index.php?group_id=1426&selected_doc_group_id=5980&language_id=1#folder]].
54 54  
55 -**The basic steps are the following:**
53 +=== **The basic steps are the following:** ===
56 56  
57 57  1. Export your anchoring results from QuickNII in JSON format (click “Save JSON” in the Manage Data window). Save the file in the same folder as your image series.
58 58  1. Open VisuAlign by double-clicking on “VisuAlign.bat”, and load your image descriptor JSON (File -> Open).
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60 60  1. You can toggle “outline mode” by pulling the opacity slider to the far right. A colour picker on the right side of the slider becomes active for changing the outline colour.
61 61  1. Enabling “Debug mode” from the View menu toggles the display of triangles representing the deformation field, and allows you to change the colour of the triangles.
62 62  1. Finally, use File -> Save As to save your fine-tuned alignment as a new JSON file.
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