Dear Alain,
Freeview should work fine if you load the surface first (central surface) and then the T1 image in native space. This works also if you load multiple surfaces to compare CAT12 with the Freesurfer surfaces of the same subject. For Freesurfer data you can also estimate the central surface for direct comparison by averaging the pial and the white (not smoothwm) surfaces.
If you change the order of loading the data the surface will be not in the same space as the T1 image (don't ask me why).
Best,
Christian
On Tue, 11 Oct 2016 12:06:03 +0100, Alain Imaging <[log in to unmask]> wrote:
>Hi everyone,
>
>I have started using CAT12 to perform a lognitudinal morphometric study. I would like to use the cortical thickness measure provided by CAT to test my hypotheses. I am playing around a little bit to see the results of segmentation/surface reconstruction for some subjects, and to check the QA for my acquisition.
>I can correctly visualize the central surface and the thickness using freeview, however I would like to check if the surface actually follow the grey matter boundary. To do so, I would need to overlay the surface onto the correct T1, however, I can not find the correct T1 to use for this check: the T1 that I used as input to CAT is in a different space than the surface, as it is the average T1 and all the other volume that can be found in the output of CAT.
>Is there a volume that I can use to check for the quality of the surface ?
>
>Alain
|