Last modified by puchades on 2022/11/02 10:16
From version 8.1
edited by sharoncy
on 2020/03/09 13:53
Change comment: There is no comment for this version
To version 11.1
edited by sharoncy
on 2020/03/09 14:04
Change comment: There is no comment for this version

Summary

Details

Page properties
Content
... ... @@ -1,31 +3,24 @@
1 -
2 -
3 3  (% class="jumbotron" %)
4 4  (((
5 5  (% class="container" %)
6 6  (((
7 -== QUINT: Workflow for Quantification and Spatial Analysis of Features in Histological Images from Rodent Brain ==
5 +== (% style="color:#16a085" %)**QUINT: Workflow for Quantification and Spatial Analysis of Features in Histological Images from Rodent Brain**(%%) ==
6 +
7 +(% style="color:#999999" %)Neural Systems Laboratory, University of Oslo
8 8  )))
9 9  )))
10 10  
11 -(% class="row" %)
12 -(((
13 -(% class="col-xs-12 col-sm-8" %)
14 -(((
15 -(% class="wikigeneratedid" %)
16 -
11 +==== ====
17 17  
18 -(% class="wikigeneratedid" id="H" %)
19 -The QUINT workflow enables the quantification and spatial analysis of labelled features in histological images of rodent brain sections based on reference atlases of the brain. It utilises three open-source software. The first – ilastik - allows the extraction of labelled features such as cells by segmentation. The second – QuickNII - generates atlas maps customised to match the proportions and cutting plane of the brain sections. The third – Nutil – enables quantification and spatial analysis of features by drawing on the output of ilastik and QuickNII. In combination, the tools facilitate semi-automated quantification, eliminating the need for more time consuming methods such as stereological analysis with manual delineation of brain regions.
20 20  
21 -= What can I find here? =
14 +==== (% style="color:#c0392b" %)Workflow Description(%%) ====
22 22  
23 -* Notice how the table of contents on the right
24 -* is automatically updated
25 -* to hold this page's headers
16 +The QUINT workflow enables the quantification and spatial analysis of labelled features in histological images of rodent brain sections based on reference atlases of the brain. It utilises three open-source software:
26 26  
27 -= Who has access? =
18 +1. (% style="color:#2980b9" %)//**ilastik**//(%%) allows the extraction of labelled features such as cells by segmentation.
19 +1. (% style="color:#2980b9" %)**//QuickNII//**(%%) generates atlas maps customised to match the proportions and cutting plane of the brain sections.
20 +1. (% style="color:#2980b9" %)**//Nutil//**(%%) enables image transformations, in addition to quantification and spatial analysis of features by drawing on the output of ilastik and QuickNII.
28 28  
29 -Describe the audience of this collab.
30 -)))
31 -)))
22 +In combination, the tools facilitate semi-automated quantification, eliminating the need for more time consuming methods such as stereological analysis with manual delineation of brain regions.
23 +
24 +