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Hello Experts,
I did like to create a mask for basal ganglia, deep grey matter, and centrum semiovale. I know how to extract the mask for the first 2 (using aseg.mgz) however, how do I extract the last one. What mask should I use to extract the centrum semiovale? I don't want to include the cerebellar white matter.
Thanks.
Best, Paul
We don't have a centrum semiovale label in FS. You could try using the (Left,Right)-UnsegmentedWhiteMatter in the wmparc.mgz
On 11/27/2020 9:28 AM, miracle ozzoude wrote:
External Email - Use Caution
Hello Experts,
I did like to create a mask for basal ganglia, deep grey matter, and centrum semiovale. I know how to extract the mask for the first 2 (using aseg.mgz) however, how do I extract the last one. What mask should I use to extract the centrum semiovale? I don't want to include the cerebellar white matter.
Thanks.
Best, Paul
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Any help with this will be greatly appreciated. Thanks.
---------- Forwarded message --------- From: miracle ozzoude miracooloz@gmail.com Date: Fri, Nov 27, 2020 at 9:28 AM Subject: extracting mask for basal ganglia, deep grey, and centrum semiovale To: Douglas N Greve freesurfer@nmr.mgh.harvard.edu
Hello Experts,
I did like to create a mask for basal ganglia, deep grey matter, and centrum semiovale. I know how to extract the mask for the first 2 (using aseg.mgz) however, how do I extract the last one. What mask should I use to extract the centrum semiovale? I don't want to include the cerebellar white matter.
Thanks.
Best, Paul
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Nevermind. I didn't see your initial reply Doug. Thanks alot.
Best, Paul
On Wed, Dec 2, 2020 at 1:35 PM miracle ozzoude miracooloz@gmail.com wrote:
Any help with this will be greatly appreciated. Thanks.
---------- Forwarded message --------- From: miracle ozzoude miracooloz@gmail.com Date: Fri, Nov 27, 2020 at 9:28 AM Subject: extracting mask for basal ganglia, deep grey, and centrum semiovale To: Douglas N Greve freesurfer@nmr.mgh.harvard.edu
Hello Experts,
I did like to create a mask for basal ganglia, deep grey matter, and centrum semiovale. I know how to extract the mask for the first 2 (using aseg.mgz) however, how do I extract the last one. What mask should I use to extract the centrum semiovale? I don't want to include the cerebellar white matter.
Thanks.
Best, Paul
Hi Paul
Have you tried using the wmseg?
Cheers Bruce
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of miracle ozzoude Sent: Wednesday, December 2, 2020 1:35 PM To: Douglas N Greve freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Fwd: extracting mask for basal ganglia, deep grey, and centrum semiovale
External Email - Use Caution Any help with this will be greatly appreciated. Thanks. ---------- Forwarded message --------- From: miracle ozzoude <miracooloz@gmail.commailto:miracooloz@gmail.com> Date: Fri, Nov 27, 2020 at 9:28 AM Subject: extracting mask for basal ganglia, deep grey, and centrum semiovale To: Douglas N Greve <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu>
Hello Experts,
I did like to create a mask for basal ganglia, deep grey matter, and centrum semiovale. I know how to extract the mask for the first 2 (using aseg.mgz) however, how do I extract the last one. What mask should I use to extract the centrum semiovale? I don't want to include the cerebellar white matter.
Thanks.
Best, Paul
freesurfer@nmr.mgh.harvard.edu
-
Fischl, Bruce -
Greve, Douglas N.,Ph.D. -
miracle ozzoude