Changes for page 5. Quantification and spatial analysis with Nutil
Last modified by puchades on 2021/11/16 09:11
Summary
-
Page properties (1 modified, 0 added, 0 removed)
-
Attachments (0 modified, 0 added, 1 removed)
Details
- Page properties
-
- Content
-
... ... @@ -2,20 +2,19 @@ 2 2 3 3 A detailed Nutil user manual is included when downloading the software. 4 4 5 -[[image:Quantifier.PNG]] 6 6 7 7 **Basic steps:** 8 8 9 -**//Quantifier//** locates and quantifies labeling identified by segmentation in rodent brain section images (mouse or rat). It requires the following input: 8 +**//Quantifier//** locates and quantifies labelling identified by segmentation in rodent brain section images (mouse or rat). It requires the following input: 10 10 11 11 (% start="1" style="list-style-type:decimal" %) 12 -1. **Segmentations with the labeling displayed in one RGB colour** 11 +1. **Segmentations with the labelling displayed in one RGB colour** 13 13 14 14 **Requirement:** 15 15 16 16 * must be 24-bit RGB images in PNG format 17 17 * same proportions as the images used in QuickNII to generate the atlas maps (can be a different size) 18 -* //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 code in the //Excel template//.17 +* **//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 code in the //Excel template//. 19 19 20 20 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. 21 21 ... ... @@ -31,4 +31,6 @@ 31 31 [[image:Illustration seg_flat_files.png||height="254" width="500"]] 32 32 33 33 33 + 34 +(% class="wikigeneratedid" id="HH4Won27tAppearinToC" %) 34 34
- Quantifier.PNG
-
- Author
-
... ... @@ -1,1 +1,0 @@ 1 -XWiki.puchades - Size
-
... ... @@ -1,1 +1,0 @@ 1 -37.8 KB - Content