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  • Illustration seg_flat_files.png

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15	15	**Requirement:**
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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).
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).
	17	+*
	18	+** Input format: 24-bit RGB images in PNG
	19	+** 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).
	20	+** //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).
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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.
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31		-[[image:Illustration seg_flat_files.png]]
	32	+[[image:Illustration seg_flat_files.png||height="254" width="500"]]
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33	33	== (% style="color:#c0392b" %)Reference atlases in //Nutil Quantifier//(%%) ==
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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.
	41	+- 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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1		-79.2 KB

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