Hi Freesurfer team,
I've run samseg for one participant, using the /mri/T1.mgz as the input, but the output seg.mgz is awful, w/ the ventricles being overestimated and the outer perimeter of the gray matter considered as the "Head-ExtraCerebral." I know in mind you all just want to know if it runs in FS7.0beta, but is this something I'm suppose to be expecting?
best,
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
________________________________
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Don't use the T1.mgz (that has been heavily processed by recon-all). Use the orig.mgz instead
On 2/25/20 8:44 PM, Zeng, Victor (BIDMC - Keshavan - Psychiatry) wrote:
Hi Freesurfer team,
I've run samseg for one participant, using the /mri/T1.mgz as the input, but the output seg.mgz is awful, w/ the ventricles being overestimated and the outer perimeter of the gray matter considered as the "Head-ExtraCerebral." I know in mind you all just want to know if it runs in FS7.0beta, but is this something I'm suppose to be expecting?
best,
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
This message is intended for the use of the person(s) to whom it may be addressed. It may contain information that is privileged, confidential, or otherwise protected from disclosure under applicable law. If you are not the intended recipient, any dissemination, distribution, copying, or use of this information is prohibited. If you have received this message in error, please permanently delete it and immediately notify the sender. Thank you.
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Thank you, it works very well, and at a glance seems actually a lot more precise than aseg.mgz, especially with the cerebellum :)
Hope it will be implemented in some shape or form to recon-all
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@mgh.harvard.edu Sent: Thursday, February 27, 2020 1:01 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [External] Re: [Freesurfer] seg.mgz testing for FS7 beta
Don't use the T1.mgz (that has been heavily processed by recon-all). Use the orig.mgz instead
On 2/25/20 8:44 PM, Zeng, Victor (BIDMC - Keshavan - Psychiatry) wrote:
Hi Freesurfer team,
I've run samseg for one participant, using the /mri/T1.mgz as the input, but the output seg.mgz is awful, w/ the ventricles being overestimated and the outer perimeter of the gray matter considered as the "Head-ExtraCerebral." I know in mind you all just want to know if it runs in FS7.0beta, but is this something I'm suppose to be expecting?
best,
Victor Zeng Beth Israel Deaconess Medical Center Keshavan Lab --
This message is intended for the use of the person(s) to whom it may be addressed. It may contain information that is privileged, confidential, or otherwise protected from disclosure under applicable law. If you are not the intended recipient, any dissemination, distribution, copying, or use of this information is prohibited. If you have received this message in error, please permanently delete it and immediately notify the sender. Thank you.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harvard.ed...
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harvard.ed...
________________________________
This message is intended for the use of the person(s) to whom it may be addressed. It may contain information that is privileged, confidential, or otherwise protected from disclosure under applicable law. If you are not the intended recipient, any dissemination, distribution, copying, or use of this information is prohibited. If you have received this message in error, please permanently delete it and immediately notify the sender. Thank you.
freesurfer@nmr.mgh.harvard.edu
-
Douglas N. Greve -
Zeng, Victor (BIDMC - Keshavan - Psychiatry)