I added --2009s to my command (mri_vol2vol) but it didn't give me the white
matter labels yet. I used following code can you tell me how should I modify it?
/usr/local/freesurfer/bin/recon-all -subjid $ID -autorecon1
/usr/local/freesurfer/bin/recon-all -subjid $ID -autorecon2
/usr/local/freesurfer/bin/recon-all -subjid $ID -autorecon3
mri_vol2vol --mov ./FreeSurfer_Subjects/MGZ/${ID}/mri/aparc.a2009s+aseg.mgz
--targ ./FreeSurfer_Subjects/MGZ/${ID}/mri/rawavg.mgz --regheader --o
./FreeSurfer_Subjects/MGZ/${ID}/mri/aparc.a2009s+aseg_org.mgz --a2009s
--no-save-reg --keep-precision --interp nearest
Thanks,
Fari
-----Original Message-----
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Tuesday, May 24, 2016 6:45 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] White matter segmentation
see
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On 05/24/2016 05:44 PM, Mahmoudi, Fariborz wrote:
>
> Dear All,
>
> I want to segment white matter into 131xx and 141xx label series. I
> used aparc.a2009s but it just gave me cortex labels (111xx and 121xx).
> Can anyone guide me how could I do this?
>
> Regards,
>
> Fari
>
>
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MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
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