Last modified by puchades on 2021/11/16 09:11
From version 23.2
edited by puchades
on 2020/04/07 16:51
Change comment: There is no comment for this version
To version 19.2
edited by puchades
on 2020/04/07 16:46
Change comment: There is no comment for this version

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15 15  **Requirement:**
16 16  
17 17  * Input format: 24-bit RGB images in PNG
18 -* The images have to have the same aspect ratio as the images used in QuickNII to generate the atlas maps (can be a different size).
18 +** The images have to have the same aspect ratio as the images used in QuickNII to generate the atlas maps (can be a different size).
19 19  * //Quantifier** **//is only able to extract one RGB colour at a time. Apply one RBG colour to all of the objects of interest, and specify this colour co//d//e in the GUI (e.g. 255, 0, 0 for red).
20 20  
21 21  To generate the segmentations we recommend the //Pixel and// //Object Classification workflows// in the //ilastik// software (//ilastik.org//). However, any image analysis software may be used.
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28 28  (% start="3" %)
29 29  1. (% style="color:#c0392b" %)**Anchored XML**(%%) file generated with the //QuickNII// software.
30 30  
31 -[[image:Illustration seg_flat_files.png]]
31 +[[image:Illustration seg_flat_files.png||height="254" width="500"]]
32 32  
33 33  == (% style="color:#c0392b" %)Reference atlases in //Nutil Quantifier//(%%) ==
34 34  
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37 37  
38 38  - Allen mouse brain Atlas (CCFv3, 2015 or 2017)
39 39  
40 -- Waxholm Space Atlas of the Sprague Dawley rat brain v2 or v3. 
40 +- Waxholm Space Atlas of the Sprague Dawley Rat v2 or v3. 
Illustration seg_flat_files.png
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1 -XWiki.puchades
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