Summary

• Page properties (1 modified, 0 added, 0 removed)

Details

Page properties

Content

...	...	@@ -7,7 +7,7 @@
7	7	**//Quantifier//** locates and quantifies labelling identified by segmentation in rodent brain section images (mouse or rat). It requires the following input:
8	8
9	9	(% start="1" style="list-style-type:decimal" %)
10		-1. **Segmentations with the labelling displayed in one RGB colour**
	10	+1. **Segmentations with the labelling displayed in one RGB colour **(Left panel)
11	11
12	12	**Requirement:**
13	13
...	...	@@ -17,13 +17,16 @@
17	17
18	18	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.
19	19
20		-(% start="2" %)
21		-1. **Customised anatomical atlas maps**
	20	+1. **Customised anatomical atlas maps **(Right panel)
22	22
23		-Generate the atlas maps in FLAT format with the //QuickNII //software
24	24
25		-(% start="3" %)
	23	+
	24	+Generate the atlas maps in FLAT format with the //QuickNII //software ([[www.nitrc.org/projects/quicknii>>url:https://www.nitrc.org/projects/quicknii]])
	25	+
	26	+
26	26	1. **Anchored XML** file generated with the //QuickNII// software.
	28	+
	29	+
27	27	1. **Reference atlas label file** (in LABEL format) corresponding to the relevant atlas. The following reference atlases are included in the //Nutil// package (in the “Labels” folder).
28	28
29	29