control points do not help with pial and white matter edits to frontal areas with atrophy
External Email - Use Caution
Hi Freesurfer Team,
I have a pt with significant atrophy in the right orbitofrontal/rostral middle frontal area (see screenshots below). I have added several control points but this has not been successful, as there is not much white matter in that area to begin with. Do you have recommendations for dealing with this type of issue? Do you typically leave as is or discard the subject entirely?
Thanks for your help, Lydia [image: image.png] [image: image.png] [image: image.png] [image: image.png]
This is not easy to deal with. Don't use control points unless you can see voxels that are fully WM; any partial voluming will cause errors. If you really want to process this subject. You will have to edit several volumes: wm.mgz -- add a thin set of WM voxels with value 255. Edit the same voxels in brain.finalsurfs.manedit.mgz to be 255. Run recon-all with -autorecon2-cp -autorecon3
On 3/1/2024 11:22 PM, Lydia Chung wrote:
External Email - Use Caution
Hi Freesurfer Team,
I have a pt with significant atrophy in the right orbitofrontal/rostral middle frontal area (see screenshots below). I have added several control points but this has not been successful, as there is not much white matter in that area to begin with. Do you have recommendations for dealing with this type of issue? Do you typically leave as is or discard the subject entirely?
Thanks for your help, Lydia image.png image.png image.png image.png --
Lydia Wu-Chung, M.A. Doctoral candidate BMED Lab Department of Psychological Sciences Rice University 6500 Main St - MS201 Houston, TX 77030 Lab Phone: 713-348-8126 Email: lydia.wu@rice.edu mailto:lw50@rice.edu
_ _
_ _
_Confidentiality Text:_
The information contained in this e-mail message may be privileged, confidential, and/or protected from disclosure. This e-mail message may contain protected health information (PHI); dissemination of PHI should comply with applicable federal and state laws. If you are not the intended recipient, or an authorized representative of the intended recipient, any further review, disclosure, use, dissemination, distribution, or copying of this message or any attachment (or the information contained therein) is strictly prohibited. If you think that you have received this e-mail message in error, please notify the sender by return e-mail and delete all references to it and its contents from your systems.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
okay thank you i will try that!
On Sun, Mar 3, 2024 at 3:36 PM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
This is not easy to deal with. Don't use control points unless you can see voxels that are fully WM; any partial voluming will cause errors. If you really want to process this subject. You will have to edit several volumes: wm.mgz -- add a thin set of WM voxels with value 255. Edit the same voxels in brain.finalsurfs.manedit.mgz to be 255. Run recon-all with -autorecon2-cp -autorecon3
On 3/1/2024 11:22 PM, Lydia Chung wrote:
External Email - Use CautionHi Freesurfer Team,
I have a pt with significant atrophy in the right orbitofrontal/rostral middle frontal area (see screenshots below). I have added several control points but this has not been successful, as there is not much white matter in that area to begin with. Do you have recommendations for dealing with this type of issue? Do you typically leave as is or discard the subject entirely?
Thanks for your help, Lydia [image: image.png] [image: image.png] [image: image.png] [image: image.png] --
Lydia Wu-Chung, M.A. Doctoral candidate BMED Lab Department of Psychological Sciences Rice University 6500 Main St - MS201 Houston, TX 77030 Lab Phone: 713-348-8126 Email: lydia.wu@rice.edu lw50@rice.edu
*Confidentiality Text:*
The information contained in this e-mail message may be privileged, confidential, and/or protected from disclosure. This e-mail message may contain protected health information (PHI); dissemination of PHI should comply with applicable federal and state laws. If you are not the intended recipient, or an authorized representative of the intended recipient, any further review, disclosure, use, dissemination, distribution, or copying of this message or any attachment (or the information contained therein) is strictly prohibited. If you think that you have received this e-mail message in error, please notify the sender by return e-mail and delete all references to it and its contents from your systems.
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1O7BFbX5kvh2ZzzEPdDsAWfsh-_qp1dSeWcuzT-n4I4KIRa... The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at https://secure-web.cisco.com/11xCb2SU6Uwg_Caj7o77dOsqCJ1XUEuid-6VTZ4ZKDeIdHK... < https://secure-web.cisco.com/11xCb2SU6Uwg_Caj7o77dOsqCJ1XUEuid-6VTZ4ZKDeIdHK... . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
freesurfer@nmr.mgh.harvard.edu
-
Douglas N. Greve -
Lydia Chung