Last modified by puchades on 2022/02/18 13:42
From version 1.1
edited by sharoncy
on 2020/03/09 12:51
Change comment: There is no comment for this version
To version 16.1
edited by puchades
on 2020/09/24 11:11
Change comment: There is no comment for this version

Summary

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1 -5. Output of the QUINT workflow
1 +6. Output of the QUINT workflow
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1 -XWiki.sharoncy
1 +XWiki.puchades
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1 -== H2 Headings Will Appear in Table of Content ==
1 +== (% style="color:#c0392b" %)How to interpret the //Nutil Quantifier// output(%%) ==
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3 3  
4 -Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
4 +1. (% style="color:#c0392b" %)**Images in PNG format**
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6 ->This is a quote. You can add a quote by selecting some text and clicking the quote button in the editor.
6 +Segmentations superimposed on the atlas maps. Object colours are assigned based on the sheet specified under “Report Regions”. If custom areas and colours are not specified, or object falls outside of the specified areas, the objects are shown in red by default.
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8 -Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
8 +[[image:0209_71661877_resize_Simple Segmentation.png]]
9 9  
10 -=== H3 Headings Will Appear In The Table of Content ===
10 +(% class="small" %)Customized atlas map with individual features representation
11 11  
12 -==== You can also add images ====
13 13  
14 -[[image:Collaboratory.Apps.Article.Code.ArticleSheet@placeholder.jpg]]
13 +(% start="2" %)
14 +1. (% style="color:#c0392b" %)**Reports in CSV format**
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16 -Photo by David Clode
16 +* RefAtlasRegions: report with output organised based on all the regions in the reference atlas.
17 +* CustomRegionsSummary and CustomRegionSections**: **reports with the output organised based on the custom regions defined in the template for the whole series (Summary) and for each individual section.
18 +* Objects: list of all the objects in the whole series (Whole Brain), with sheets showing breakdown per section.
17 17  
18 -==== Or code ====
20 +[[image:Report_example.PNG]]
19 19  
20 -Code blocks can be added by using the code macro:
22 +(% start="3" %)
23 +1. (% style="color:#c0392b" %)**Coordinates in JSON format (for the whole series and per section)**
21 21  
22 -{{code language="python"}}
23 -x = 1
24 -if x == 1:
25 - # indented four spaces
26 - print("x is 1.")
27 -{{/code}}
25 +* The JSON files contains point clouds coordinates in the selected reference atlas space that can be visualised with the MeshView atlas viewer.
28 28  
29 -(% class="wikigeneratedid" id="HH4Won27tAppearinToC" %)
30 -
27 +== (% style="color:#c0392b" %)Visualise the QUINT output(%%) ==
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29 +
30 +[[image:QUINTpoint cloud.png]]
31 +
32 +
33 +Point clouds visualised with MeshView. Location of human amyloid in blue, mouse amyloid in red and pyroglutamate modified amyloid in green, in Hippocampal regions of transgenic Tg2573 mouse brain.
0209_71661877_resize_Simple Segmentation.png
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QUINTpoint cloud.png
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Quantifier output.png
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Report_example.PNG
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