External Email - Use Caution
Dear,
We also noticed a bad segmentation in another subject in the frontal cortex (see attached figure) which was correctly done using CAT12. Can we change some parameters to fix this?
Thank you
Kind regards Donatienne
[image: image.png]
Op do 19 nov. 2020 om 14:33 schreef Donatienne Van Weehaeghe < donatiennevanweehaeghe@gmail.com>:
[image: HD_CAU_T1_MR.JPG] Dear,
In the attachment the figures.The surface placement is ok. The cautate is smaller than the segmentation.
Kind regards Donatienne
Op wo 11 nov. 2020 om 17:01 schreef Douglas N. Greve < dgreve@mgh.harvard.edu>:
The caudate segmentation would not affect the surface placement. Is the surface placement ok? Can you send a pic of the caudate error?
On 11/6/2020 9:58 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
Would there be another option to fix this?
Kind regards Donatienne
Op do 5 nov. 2020 om 17:38 schreef Donatienne Van Weehaeghe < donatiennevanweehaeghe@gmail.com>:
The subcortical structures were not delineated correctly, especially the nucleus caudatus which had a lot of atrophy in this particular patient group.
Kind regards Donatienne
Op do 5 nov. 2020 om 15:50 schreef Douglas N. Greve < dgreve@mgh.harvard.edu>:
I don't think CAT creates white or pial surfaces, so no. What is wrong with your FS analysis?
On 11/5/2020 2:15 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
The segmentation using Freesurfer was incorrect, however we have a good segmentation from Cat 12. Can we use this segmentation for PVC in PETsurfer?
Kind regards Donatienne
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I think you would have to manually edit it
On 11/24/2020 8:01 AM, Donatienne Van Weehaeghe wrote:
External Email - Use Caution
Dear,
We also noticed a bad segmentation in another subject in the frontal cortex (see attached figure) which was correctly done using CAT12. Can we change some parameters to fix this?
Thank you
Kind regards Donatienne
[image.png]
Op do 19 nov. 2020 om 14:33 schreef Donatienne Van Weehaeghe <donatiennevanweehaeghe@gmail.commailto:donatiennevanweehaeghe@gmail.com>: [HD_CAU_T1_MR.JPG] Dear,
In the attachment the figures.The surface placement is ok. The cautate is smaller than the segmentation.
Kind regards Donatienne
Op wo 11 nov. 2020 om 17:01 schreef Douglas N. Greve <dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu>: The caudate segmentation would not affect the surface placement. Is the surface placement ok? Can you send a pic of the caudate error?
On 11/6/2020 9:58 AM, Donatienne Van Weehaeghe wrote:
External Email - Use Caution
Dear,
Would there be another option to fix this?
Kind regards Donatienne
Op do 5 nov. 2020 om 17:38 schreef Donatienne Van Weehaeghe <donatiennevanweehaeghe@gmail.commailto:donatiennevanweehaeghe@gmail.com>: The subcortical structures were not delineated correctly, especially the nucleus caudatus which had a lot of atrophy in this particular patient group.
Kind regards Donatienne
Op do 5 nov. 2020 om 15:50 schreef Douglas N. Greve <dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu>: I don't think CAT creates white or pial surfaces, so no. What is wrong with your FS analysis?
On 11/5/2020 2:15 AM, Donatienne Van Weehaeghe wrote:
External Email - Use Caution
Dear,
The segmentation using Freesurfer was incorrect, however we have a good segmentation from Cat 12. Can we use this segmentation for PVC in PETsurfer?
Kind regards Donatienne
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurferhttps://secure-web.cisco.com/1ZxmEs2Pk3BSMewoFlR47-yhqcFOo6DC4cKshyj4rTlsuLJB-lX2-17scYj6eyBy8oBx51BWPPWnmw4DO-O7Po_Pt_Qr3Zkz4ntxNcDfxQsDuqDehy6iRqGUj0Sl-aRPRaVNteXx6RxcYxuXYq1k7HTYDFAOjjbCtbmOn_fwXdxvUQbVjJb3zQlId77o_0NQnLn7qiEYvovXCcgSGHG2qtQ/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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Dear Doug
Thank you for your response. We just found out that this problem occurs in many subjects where the 32 channel coil is used (mainly in the frontal cortex). We never had this problem using the 8 channel coil. Do we have to add something to the recon all code for a 32 channel coil? CAT12 has no problem to segment these subjects.
Manually editing would be very time consuming as it affects many subjects.
Thank you.
Kind regards
Op zo 29 nov. 2020 om 23:53 schreef Greve, Douglas N.,Ph.D. < DGREVE@mgh.harvard.edu>:
I think you would have to manually edit it
On 11/24/2020 8:01 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
We also noticed a bad segmentation in another subject in the frontal cortex (see attached figure) which was correctly done using CAT12. Can we change some parameters to fix this?
Thank you
Kind regards Donatienne
[image: image.png]
Op do 19 nov. 2020 om 14:33 schreef Donatienne Van Weehaeghe < donatiennevanweehaeghe@gmail.com>:
[image: HD_CAU_T1_MR.JPG] Dear,
In the attachment the figures.The surface placement is ok. The cautate is smaller than the segmentation.
Kind regards Donatienne
Op wo 11 nov. 2020 om 17:01 schreef Douglas N. Greve < dgreve@mgh.harvard.edu>:
The caudate segmentation would not affect the surface placement. Is the surface placement ok? Can you send a pic of the caudate error?
On 11/6/2020 9:58 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
Would there be another option to fix this?
Kind regards Donatienne
Op do 5 nov. 2020 om 17:38 schreef Donatienne Van Weehaeghe < donatiennevanweehaeghe@gmail.com>:
The subcortical structures were not delineated correctly, especially the nucleus caudatus which had a lot of atrophy in this particular patient group.
Kind regards Donatienne
Op do 5 nov. 2020 om 15:50 schreef Douglas N. Greve < dgreve@mgh.harvard.edu>:
I don't think CAT creates white or pial surfaces, so no. What is wrong with your FS analysis?
On 11/5/2020 2:15 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
The segmentation using Freesurfer was incorrect, however we have a good segmentation from Cat 12. Can we use this segmentation for PVC in PETsurfer?
Kind regards Donatienne
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.edu*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/13HXfy_ZMuwDOBwek9h5ie6aVYbtZbIfa7foiD9aKmF5XHj... https://secure-web.cisco.com/1ZxmEs2Pk3BSMewoFlR47-yhqcFOo6DC4cKshyj4rTlsuLJB-lX2-17scYj6eyBy8oBx51BWPPWnmw4DO-O7Po_Pt_Qr3Zkz4ntxNcDfxQsDuqDehy6iRqGUj0Sl-aRPRaVNteXx6RxcYxuXYq1k7HTYDFAOjjbCtbmOn_fwXdxvUQbVjJb3zQlId77o_0NQnLn7qiEYvovXCcgSGHG2qtQ/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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Which version of FS are you using?
On 12/2/2020 4:08 PM, Donatienne Van Weehaeghe wrote:
External Email - Use Caution
Dear Doug
Thank you for your response. We just found out that this problem occurs in many subjects where the 32 channel coil is used (mainly in the frontal cortex). We never had this problem using the 8 channel coil. Do we have to add something to the recon all code for a 32 channel coil? CAT12 has no problem to segment these subjects.
Manually editing would be very time consuming as it affects many subjects.
Thank you.
Kind regards
Op zo 29 nov. 2020 om 23:53 schreef Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edumailto:DGREVE@mgh.harvard.edu>: I think you would have to manually edit it
On 11/24/2020 8:01 AM, Donatienne Van Weehaeghe wrote:
External Email - Use Caution
Dear,
We also noticed a bad segmentation in another subject in the frontal cortex (see attached figure) which was correctly done using CAT12. Can we change some parameters to fix this?
Thank you
Kind regards Donatienne
[image.png]
Op do 19 nov. 2020 om 14:33 schreef Donatienne Van Weehaeghe <donatiennevanweehaeghe@gmail.commailto:donatiennevanweehaeghe@gmail.com>: [HD_CAU_T1_MR.JPG] Dear,
In the attachment the figures.The surface placement is ok. The cautate is smaller than the segmentation.
Kind regards Donatienne
Op wo 11 nov. 2020 om 17:01 schreef Douglas N. Greve <dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu>: The caudate segmentation would not affect the surface placement. Is the surface placement ok? Can you send a pic of the caudate error?
On 11/6/2020 9:58 AM, Donatienne Van Weehaeghe wrote:
External Email - Use Caution
Dear,
Would there be another option to fix this?
Kind regards Donatienne
Op do 5 nov. 2020 om 17:38 schreef Donatienne Van Weehaeghe <donatiennevanweehaeghe@gmail.commailto:donatiennevanweehaeghe@gmail.com>: The subcortical structures were not delineated correctly, especially the nucleus caudatus which had a lot of atrophy in this particular patient group.
Kind regards Donatienne
Op do 5 nov. 2020 om 15:50 schreef Douglas N. Greve <dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu>: I don't think CAT creates white or pial surfaces, so no. What is wrong with your FS analysis?
On 11/5/2020 2:15 AM, Donatienne Van Weehaeghe wrote:
External Email - Use Caution
Dear,
The segmentation using Freesurfer was incorrect, however we have a good segmentation from Cat 12. Can we use this segmentation for PVC in PETsurfer?
Kind regards Donatienne
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurferhttps://secure-web.cisco.com/1ZxmEs2Pk3BSMewoFlR47-yhqcFOo6DC4cKshyj4rTlsuLJB-lX2-17scYj6eyBy8oBx51BWPPWnmw4DO-O7Po_Pt_Qr3Zkz4ntxNcDfxQsDuqDehy6iRqGUj0Sl-aRPRaVNteXx6RxcYxuXYq1k7HTYDFAOjjbCtbmOn_fwXdxvUQbVjJb3zQlId77o_0NQnLn7qiEYvovXCcgSGHG2qtQ/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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We have this problem both with Freesurfer version 6 and 7.
Op ma 7 dec. 2020 om 16:22 schreef Greve, Douglas N.,Ph.D. < DGREVE@mgh.harvard.edu>:
Which version of FS are you using?
On 12/2/2020 4:08 PM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear Doug
Thank you for your response. We just found out that this problem occurs in many subjects where the 32 channel coil is used (mainly in the frontal cortex). We never had this problem using the 8 channel coil. Do we have to add something to the recon all code for a 32 channel coil? CAT12 has no problem to segment these subjects.
Manually editing would be very time consuming as it affects many subjects.
Thank you.
Kind regards
Op zo 29 nov. 2020 om 23:53 schreef Greve, Douglas N.,Ph.D. < DGREVE@mgh.harvard.edu>:
I think you would have to manually edit it
On 11/24/2020 8:01 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
We also noticed a bad segmentation in another subject in the frontal cortex (see attached figure) which was correctly done using CAT12. Can we change some parameters to fix this?
Thank you
Kind regards Donatienne
[image: image.png]
Op do 19 nov. 2020 om 14:33 schreef Donatienne Van Weehaeghe < donatiennevanweehaeghe@gmail.com>:
[image: HD_CAU_T1_MR.JPG] Dear,
In the attachment the figures.The surface placement is ok. The cautate is smaller than the segmentation.
Kind regards Donatienne
Op wo 11 nov. 2020 om 17:01 schreef Douglas N. Greve < dgreve@mgh.harvard.edu>:
The caudate segmentation would not affect the surface placement. Is the surface placement ok? Can you send a pic of the caudate error?
On 11/6/2020 9:58 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
Would there be another option to fix this?
Kind regards Donatienne
Op do 5 nov. 2020 om 17:38 schreef Donatienne Van Weehaeghe < donatiennevanweehaeghe@gmail.com>:
The subcortical structures were not delineated correctly, especially the nucleus caudatus which had a lot of atrophy in this particular patient group.
Kind regards Donatienne
Op do 5 nov. 2020 om 15:50 schreef Douglas N. Greve < dgreve@mgh.harvard.edu>:
I don't think CAT creates white or pial surfaces, so no. What is wrong with your FS analysis?
On 11/5/2020 2:15 AM, Donatienne Van Weehaeghe wrote:
External Email - Use CautionDear,
The segmentation using Freesurfer was incorrect, however we have a good segmentation from Cat 12. Can we use this segmentation for PVC in PETsurfer?
Kind regards Donatienne
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Donatienne Van Weehaeghe -
Greve, Douglas N.,Ph.D.