Neuroscience Research Australia
Margarete Ainsworth Building
Barker Street Randwick Sydney NSW 2031 Australia
M 0411 308 769 T +61 2 9399 1725
Hi Bruce,
Thank you for your reply. On reviewing this participant in Freeview, I'm really not certain if there is a topological defect present, or if the WM and pial surface delineations are incorrect. Would it be possible to send the volume to you for review. If so, how would I go about this? I would greatly appreciate any insight you can provide.
Kind regards,
Bronwyn Overs
Senior Research Assistant
From: "Fischl, Bruce R.,PHD" <BFISCHL@MGH.HARVARD.EDU>
To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu>
Sent: Saturday, 12 October, 2024 12:42:03 AM
Subject: Re: [Freesurfer] [WARNING: ATTACHMENT UNSCANNED]Issue with WM surface fill
To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu>
Sent: Saturday, 12 October, 2024 12:42:03 AM
Subject: Re: [Freesurfer] [WARNING: ATTACHMENT UNSCANNED]Issue with WM surface fill
Hi Bronwyn
Hard to say without seeing the data, but I would guess that there are topological defects causing these issues. You can overlay the locations of the defects in freeview and see if that explains things.
Cheers
Bruce
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu>
On Behalf Of Bronwyn Overs
Sent: Friday, October 11, 2024 1:31 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] [WARNING: ATTACHMENT UNSCANNED]Issue with WM surface fill
External Email - Use Caution
Dear Freesurfer Support,
I'm reviewing a specific MRI image that I have processed with Freesurfer V5.3. I'm concerned about a potential issue with voxels missing from the WM surface. This appears to impacting the pial boundaries and lateral ventricle labels in the aseg from slices 56-99. For reference, I attached 5 images (both wm and brainmask surfaces) that are each 5 slices apart. Happy to upload the whole series of images if this would be helpful.
Would you recommend filling in some of the voxels near the lateral ventricles? My concern is that I am unsure where the ventricle begins, as I suspect the gyrus at the rh pericalcarine surface is not being properly labelled and identified in the pial surface. Any advice you can provide will be greatly appreciated.
Kind regards,
Bronwyn Overs
Senior Research Assistant
Neuroscience Research Australia
Margarete Ainsworth Building
Barker Street Randwick Sydney NSW 2031 Australia
M 0411 308 769 T +61 2 9399 1725
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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://www.massgeneralbrigham.org/complianceline <https://www.massgeneralbrigham.org/complianceline> .
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.