Changes for page 3. Tutorials and manuals

Last modified by puchades on 2021/12/07 11:18
From version 24.2
edited by puchades
on 2020/10/06 11:12
Change comment: There is no comment for this version
To version 28.1
edited by puchades
on 2021/12/07 11:18
Change comment: There is no comment for this version

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7 7  2. Adjust the atlas slices generated along these angles to match individual section
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24 24  == (% style="color:#c0392b" %)Preparation of the image series(%%) ==
25 25  
26 26  Before you get started with image registration, make sure your images are the right size. Images should be in 24-bit PNG or JPEG format, with a resolution up to 16 megapixels (e.g. 4000x4000 or 5000x3000 pixels).
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33 33  
34 34  == (% style="color:#c0392b" %)Links to Manuals(%%) ==
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36 -The latest QuickNII manual can be found here: [[(% style="color:#27ae60" %)QuickNII_user_guide>>https://www.nitrc.org/docman/?group_id=1341]]
22 +The latest QuickNII manual can be found here: [[(% style="color:#27ae60" %)QuickNII_user_guide>>https://quicknii.readthedocs.io/en/latest/index.html]]
37 37  
38 -The latest VisuAlign manual can be found here: [[(% style="color:#27ae60" %)VisuAlign_user_guide>>https://www.nitrc.org/docman/index.php?group_id=1426&selected_doc_group_id=5980&language_id=1#folder]]
24 +The latest VisuAlign manual can be found here: [[(% style="color:#27ae60" %)VisuAlign_user_guide>>https://visualign.readthedocs.io/en/latest/]]
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57 57  
58 58  Review the position of **all sections** in the series, adjust the width and height of atlas slices as necessary, **and save settings**.
59 59  
60 -**Done! **Now you can **export customised atlas maps** corresponding to your series by clicking on the “Export Slices” button. The exported .flat files are used for the quantification by using Nutil Quantifier. "Save JSON" in order to continue to non-linear regsitration with VisuAlign.
46 +**Done! **Now you can **export customised atlas maps** corresponding to your series by clicking on the “Export Slices” button. The exported .flat files are used for the quantification by using Nutil Quantifier. "Save JSON" in order to continue to non-linear registration with VisuAlign.
61 61  
62 62  == (% style="color:#c0392b" %)**Nonlinear adjustment with VisuAlign**(%%) ==
63 63  
64 64  **[[image:Collabs.quint.Image registration to reference atlas using QuickNII.WebHome@VisuAlign_illustration.png]]**
65 65  
66 - 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]].
67 67  
68 68  === **The basic steps are the following:** ===
69 69