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Hello, I've been trying to extract ROIs directly from the Desikan atlas by using the mri_annotation2label and the aparc.annot files from the fsaverage folder.
I noticed that this pulls out the grey matter portion for these regions but was wondering if there was a command or file that I could use to do the same for both the grey and white matter. For example, is it possible to extract the grey and white matter region of the posteriorcingulate (in one file)?
Thank you so much in advance for your help!
Best regards, Da-yea
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what do you mean by the white matter region? The aparc only labels cortex, which is, of course, GM. If you mean the WM adjacent to the aparc, have you looked at the wmparc.mgz file?
On 12/11/2018 05:16 PM, Song, Da-Yea wrote:
External Email - Use Caution
Hello,
I’ve been trying to extract ROIs directly from the Desikan atlas by using the mri_annotation2label and the aparc.annot files from the fsaverage folder.
I noticed that this pulls out the grey matter portion for these regions but was wondering if there was a command or file that I could use to do the same for both the grey and white matter. For example, is it possible to extract the grey and white matter region of the posteriorcingulate (in one file)?
Thank you so much in advance for your help!
Best regards,
Da-yea
Disclaimer:
The materials in this e-mail are private and may contain Protected Information. Please note that e-mail communication is not encrypted by default. You have the right to request further emails be encrypted by notifying the sender. Your continued use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Hello,
Does the fsaverage subject have a wmparc.mgz file?
Thank you, Da-Yea
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Greve, Douglas N.,Ph.D. Sent: Tuesday, December 11, 2018 5:42 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Extracting both the GM and WM ROIs
what do you mean by the white matter region? The aparc only labels cortex, which is, of course, GM. If you mean the WM adjacent to the aparc, have you looked at the wmparc.mgz file?
On 12/11/2018 05:16 PM, Song, Da-Yea wrote:
External Email - Use Caution
Hello,
I've been trying to extract ROIs directly from the Desikan atlas by using the mri_annotation2label and the aparc.annot files from the fsaverage folder.
I noticed that this pulls out the grey matter portion for these regions but was wondering if there was a command or file that I could use to do the same for both the grey and white matter. For example, is it possible to extract the grey and white matter region of the posteriorcingulate (in one file)?
Thank you so much in advance for your help!
Best regards,
Da-yea
-- Disclaimer:
The materials in this e-mail are private and may contain Protected Information. Please note that e-mail communication is not encrypted by default. You have the right to request further emails be encrypted by notifying the sender. Your continued use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail.
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No, but each individual subject does.
On 12/14/18 11:04 AM, Song, Da-Yea wrote:
External Email - Use CautionHello,
Does the fsaverage subject have a wmparc.mgz file?
Thank you, Da-Yea
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Greve, Douglas N.,Ph.D. Sent: Tuesday, December 11, 2018 5:42 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Extracting both the GM and WM ROIs
what do you mean by the white matter region? The aparc only labels cortex, which is, of course, GM. If you mean the WM adjacent to the aparc, have you looked at the wmparc.mgz file?
On 12/11/2018 05:16 PM, Song, Da-Yea wrote:
External Email - Use Caution
Hello,
I've been trying to extract ROIs directly from the Desikan atlas by using the mri_annotation2label and the aparc.annot files from the fsaverage folder.
I noticed that this pulls out the grey matter portion for these regions but was wondering if there was a command or file that I could use to do the same for both the grey and white matter. For example, is it possible to extract the grey and white matter region of the posteriorcingulate (in one file)?
Thank you so much in advance for your help!
Best regards,
Da-yea
-- Disclaimer:
The materials in this e-mail are private and may contain Protected Information. Please note that e-mail communication is not encrypted by default. You have the right to request further emails be encrypted by notifying the sender. Your continued use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail.
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Greve, Douglas N.,Ph.D. -
Song, Da-Yea