Hi,
if you have already performed the reg-feat2anat, then you already have the required registration matrices: - from MNI space (atlas) directly: std2anat.fsl.mat, or - from the individual space: exf2anat.fsl.mat
You can try using these.
Cheers,
Auer, Tibor M.D. Ph.D. Biomedizinische NMR Forschungs GmbH am Max-Planck Institut für Biophysikalische Chemie Am Fassberg 11 37077 Göttingen Germany Phone/Work: +49-(0)551-201-1725 Phone/Home: +49-(0)551-387-0076 Mobile: +49-(0)176-8012-7921 Mail: tauer@mpibpc.mpg.de
-----Original Message----- From: Stephanie Rossi [mailto:steros@nmr.mgh.harvard.edu] Sent: Thursday, August 09, 2012 8:20 PM To: Auer, Tibor Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_vol2surf or mri_cor2label
Hi again,
We've done the conversion, but the position of the label is not correct.
We derived our masks from fsl HarvardOxford atlas and then obtained individual subjects masks. Should we apply any registration matrix for the freesurfer environment before we run mri_cor2label?
Thank you, Stephanie
The syntax is a bit different from what you can fin din the wiki:
mri_cor2label --i label.nii.gz --l label.label --id 1
will convert label.nii.gz to label.label containing 1 for each voxel.
Cheers,
Auer, Tibor M.D. Ph.D. Biomedizinische NMR Forschungs GmbH am Max-Planck Institut für Biophysikalische Chemie Am Fassberg 11 37077 Göttingen Germany Phone/Work: +49-(0)551-201-1725 Phone/Home: +49-(0)551-387-0076 Mobile: +49-(0)176-8012-7921 Mail: tauer@mpibpc.mpg.de
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Stephanie Rossi Sent: Thursday, August 09, 2012 7:04 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] mri_vol2surf or mri_cor2label
Hi,
I have seeds defined in fsl for individual subjects (nii.gz) and I would like to convert them to freesurfer labels for individual subjects. Which command would I have to use: mri_vol2surf or mri_cor2label? Thank you for your help!
Best, Stephanie _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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