Hi bruceŁ¬

   I still have some questions about extracting cortical features of a ROI. I used the mri_label2label to sample the volumetric label to the surface of the subject. But I dont know how to do next, as i found that the RAS coordinates do  not correspond to the coordinates in the lh.thickness, and why?

    Besides, I found the  web of how to extract cortical thickness values for a region-of-interest (ROI) defined in volume space(https://surfer.nmr.mgh.harvard.edu/fswiki/VolumeRoiCorticalThickness).But it doesn't report the coordinates information. How can I get the ROI's coordinates information if i use this method?

 

Hi Kan

if you draw a volumetric label you first need to sample it to the surface
of that subject (mri_label2label --sample). If all you want are stats from
the subject there is no need to map it to fsaverage - that is only
necessary if you want to use a group coordinate system.

cheers
Bruce



On Fri, 25 Jan 2019,
310913949 wrote:

>
>  External Email - Use Caution
>
>
> Dear Freesurfer Experts,
>        I want to extract cortical features of a ROI that I drawn manually on  the rawavg.mgz in Freesurfer, but i
> don't know how to do that. I think maybe first the  lesion mask should be registered to the  standard templates
> fsaverage, but I don't know what the command line is , could  you tell me?  And secondly, I should use
> mri_label2label to map the label to individual subject  and extract the cortical features of the ROI, am I right?
>       I am looking forward to your reply!Thanks.
>
>                                                   Best wishes!
>                                                       Kan Deng
>
>
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