Last modified by puchades on 2022/02/18 13:55
From version 18.1
edited by puchades
on 2020/03/30 16:49
Change comment: Deleted image "BICCN_QNII_figure.jpg"
To version 18.2
edited by puchades
on 2020/04/07 16:00
Change comment: There is no comment for this version

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1 1  == [[image:BICCN_QNII_figure.png]] ==
2 2  
3 -== (% style="color:#c0392b" %)//QuickNII// and //VisuAlign//(%%) ==
3 +== ==
4 4  
5 -(% class="wikigeneratedid" %)
6 -**//QuickNII//** enable the registeration of the brain section images to the reference atlas to generate atlas maps that are customised to match the cutting plane and proportions of the sections. The adjusted are done by linear transformation only to allow angles to be calculated.
5 +The QUINT workflow allows you to register series of histological section images from the brain to a 3D reference atlas such as the Allen Mouse Brain Atlas or the Waxholm Space atlas of the rat brain. This is a two-step process:
7 7  
8 -(% class="wikigeneratedid" %)
9 -**//VisuAlign//** enables manual adjustments of the //QuickNII// atlas maps by nonlinear transformation to better match the sections.
7 +1. QuickNII guides you through an interactive affine alignment, including propagation of alignment settings across the section series.
8 +1. VisuAlign lets you fine-tune your alignment using non-linear adjustments.
10 10  
11 -(% class="wikigeneratedid" %)
12 -The** QUINT workflow** is compatible with the atlas map output of both //QuickNII// and //VisuAlign// (the //VisuAlign// step is optional).
10 +Further steps of the QUINT workflow are compatible with the atlas map output of both QuickNII and VisuAlign (the VisuAlign step is optional).
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14 14  == (% style="color:#c0392b" %)Preparation of the image series(%%) ==
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