Xiaochu, I'm putting together a web page describing the steps taken to get cortical thickness from an ROI defined by a volume mask. Can you send me these two files so that I can make sure the steps work correctly?
1) the ROI mask file (what you are calling 'abc.nii') 2) the T1-weighted anatomical volume of the subject from which abc.nii was created. i need this file to register to a template volume. You can post those files (available only to me) by uploading to our file drop: https://www.nmr.mgh.harvard.edu/facility/filedrop/index.html Nick On Sat, 2008-11-15 at 00:48 -0500, Zhang, Xiaochu (NIH/NIDA) [F] wrote: > Hi, FreeSurfer export, > > Thank you very much for response! > Now, under some export's help, I used to the mri_surf2vol to transfer cortex > thickness into nifti. > The below line is what I used. > mri_surf2vol --surfval ../surf/lh.thickness --hemi lh --fillribbon --template > orig.mgz --volregidentity ${subid} --outvol lh.ribbon.nii > > I checked the result and found the voxel outside the gray matter is always > zero and in the gray matter is about 0-3. Could you please do me a favor and > tell me whether these data is cortex thickness or not? > If they are cortex thickness, why are they always different. In my mind, it > should be same in one direction because we calculate the distance between the > white matter line and the gray matter line. > > Thanks a lot! > All the best, > Xiaochu > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
