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Dear Freesurfer expert,
Please receive my email as a kind reminder of my previous one: Can I extract the cortical boundary as a spatial series and the center of the mass in the grey matter segmented images using the FreeSurfer? Can you please let me know how to?
Many thanks in advance, Dr. -Ing. Alexandra Korda
Forschung & Lehre Zentrum für Integrative Psychiatrie ZIP gGmbH Campus Lübeck Ratzeburger Allee 160 I Haus B7 I 23538 Lübeck Tel.: +49 451 500-98715 alexandra.korda@uksh.de I http://secure-web.cisco.com/1pjc_SGUWZLRg8chpXIrtY4lF77fMNhpz7khzIO23axlH1vI... https://secure-web.cisco.com/15uhZPgBC1AIlkY28uAICPQga2oSml8UpQWNMpilTQ-llrs... ________________________________ From: Korda, Alexandra Sent: 25 July 2023 08:36:07 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] cortical boundary and center of gravity
Dear Freesurfer expert,
Please receive my email as a kind reminder of my previous one: Can I extract the cortical boundary as a spatial series and the center of the mass in the grey matter segmented images using the FreeSurfer? Can you please let me know how to?
Many thanks in advance,
Dr. -Ing. Alexandra Korda
Forschung & Lehre Zentrum für Integrative Psychiatrie ZIP gGmbH Campus Lübeck Ratzeburger Allee 160 I Haus B7 I 23538 Lübeck Tel.: +49 451 500-98715 alexandra.korda@uksh.demailto:mihai.avram@uksh.de I http://secure-web.cisco.com/1pjc_SGUWZLRg8chpXIrtY4lF77fMNhpz7khzIO23axlH1vI...https://secure-web.cisco.com/1SMYGEOfCW0s4SarHXg-cGIZRmbt6vy_UVLuNjKf0xwB9eMkkUeSXB46B4gFwSan46HbC5LFrpcLv8cOMfaOrN7D5QYYICTC7Pcqc2zjXFYHolsrGp_RWSG7IdXPspDVossy55RH_fVI-5aakDc0BaZQahJFxxDL6V7OerY_kM1NEII8s9rkmwR9zrE6QTNZU01_DUOp5VPW4JrawRmyQDjl1lJ45HcNAyo9G0Q4RQVhC4acaeE5GEi9V7Qi3YD8M8gFEuuNW5QhTZCD_nqvbUUmHKuYKqTltflYFw9T8KRflLg-YK_RK_NjPzgNadSVpK4ryDT9RjHV7EbtBgG0ev9_3klo6NSCMv9LCmzdKM3A/https%3A%2F%2Fsslgate.uni-luebeck.de%2Fowa%2F,DanaInfo=webmail.uksh.de,SSL+ https://secure-web.cisco.com/15uhZPgBC1AIlkY28uAICPQga2oSml8UpQWNMpilTQ-llrs...
________________________________ From: Korda, Alexandra Sent: 21 July 2023 15:53:02 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] cortical boundary and center of gravity
I am sorry, I mean the grey matter segmented images. What I wanted to do is to measure the complexity of the cortical boundary.
I have run an analysis using VBM in which I used the segmented brain MR images, calculate the center of the mass in these images and the cortical boundary (per slice, but this is not a problem to use the 3D cortical boundary spatial-series). Then, I calculated the distances between the center of the mass and the cortical boundary.
Is it possible to replicate this analysis using the FreeSurfer?
Many thanks for the help.
Dr. -Ing. Alexandra Korda
Forschung & Lehre Zentrum für Integrative Psychiatrie ZIP gGmbH Campus Lübeck Ratzeburger Allee 160 I Haus B7 I 23538 Lübeck Tel.: +49 451 500-98715 alexandra.korda@uksh.demailto:mihai.avram@uksh.de I http://secure-web.cisco.com/1pjc_SGUWZLRg8chpXIrtY4lF77fMNhpz7khzIO23axlH1vI...https://secure-web.cisco.com/1SMYGEOfCW0s4SarHXg-cGIZRmbt6vy_UVLuNjKf0xwB9eMkkUeSXB46B4gFwSan46HbC5LFrpcLv8cOMfaOrN7D5QYYICTC7Pcqc2zjXFYHolsrGp_RWSG7IdXPspDVossy55RH_fVI-5aakDc0BaZQahJFxxDL6V7OerY_kM1NEII8s9rkmwR9zrE6QTNZU01_DUOp5VPW4JrawRmyQDjl1lJ45HcNAyo9G0Q4RQVhC4acaeE5GEi9V7Qi3YD8M8gFEuuNW5QhTZCD_nqvbUUmHKuYKqTltflYFw9T8KRflLg-YK_RK_NjPzgNadSVpK4ryDT9RjHV7EbtBgG0ev9_3klo6NSCMv9LCmzdKM3A/https%3A%2F%2Fsslgate.uni-luebeck.de%2Fowa%2F,DanaInfo=webmail.uksh.de,SSL+ https://secure-web.cisco.com/15uhZPgBC1AIlkY28uAICPQga2oSml8UpQWNMpilTQ-llrs...
________________________________ From: Korda, Alexandra Sent: 21 July 2023 08:24:21 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] cortical boundary and center of gravity
The distance between the center of the mass in the GM images and the points in the outer boundary in the GM images.
Thanks for the quick reply.
Dr. -Ing. Alexandra Korda
Forschung & Lehre Zentrum für Integrative Psychiatrie ZIP gGmbH Campus Lübeck Ratzeburger Allee 160 I Haus B7 I 23538 Lübeck Tel.: +49 451 500-98715 alexandra.korda@uksh.demailto:mihai.avram@uksh.de I http://secure-web.cisco.com/1pjc_SGUWZLRg8chpXIrtY4lF77fMNhpz7khzIO23axlH1vI...https://secure-web.cisco.com/1SMYGEOfCW0s4SarHXg-cGIZRmbt6vy_UVLuNjKf0xwB9eMkkUeSXB46B4gFwSan46HbC5LFrpcLv8cOMfaOrN7D5QYYICTC7Pcqc2zjXFYHolsrGp_RWSG7IdXPspDVossy55RH_fVI-5aakDc0BaZQahJFxxDL6V7OerY_kM1NEII8s9rkmwR9zrE6QTNZU01_DUOp5VPW4JrawRmyQDjl1lJ45HcNAyo9G0Q4RQVhC4acaeE5GEi9V7Qi3YD8M8gFEuuNW5QhTZCD_nqvbUUmHKuYKqTltflYFw9T8KRflLg-YK_RK_NjPzgNadSVpK4ryDT9RjHV7EbtBgG0ev9_3klo6NSCMv9LCmzdKM3A/https%3A%2F%2Fsslgate.uni-luebeck.de%2Fowa%2F,DanaInfo=webmail.uksh.de,SSL+ https://secure-web.cisco.com/15uhZPgBC1AIlkY28uAICPQga2oSml8UpQWNMpilTQ-llrs...
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@MGH.HARVARD.EDU Sent: 20 July 2023 22:53:23 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] cortical boundary and center of gravity
Achtung, externe Mail!
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I'm not sure I understand what you are asking for. Do you want to compute the distance from a given point in the volume to the closest point on cortex?
On 7/20/2023 7:09 AM, Alexandra.Korda@uksh.demailto:Alexandra.Korda@uksh.de wrote:
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Hello FreeSurfer Developers,
I need to compute the distance between the center of the mass in grey matter images and the cortical boundary. Then, I need this spatial-series to be saved in a csv. It is also possible to save the cortical boundary series and the center of gravity and then externally calculate the distances. I've searched for it in the archived question but I didn't find anything similar.
Looking forward to your response.
With kind regards, Dr. -Ing. Alexandra Korda Forschung & Lehre Zentrum für Integrative Psychiatrie ZIP gGmbH Campus Lübeck Ratzeburger Allee 160 I Haus B7 I 23538 Lübeck Tel.: +49 451 500-98715 alexandra.korda@uksh.demailto:mihai.avram@uksh.de I MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be http://secure-web.cisco.com/1pjc_SGUWZLRg8chpXIrtY4lF77fMNhpz7khzIO23axlH1vI...https://secure-web.cisco.com/1twyfDJTIknltZR0-Tyay6CZIE_zgNY1xNGsF12YV60wLD50QwXBRkNkEIOufdWZu5nCM9d5gEn9jzPqCcvpWmRMXyHo18JhRimmB-CzLWX7X0FIuTtYbL0F1kbqkLUOcra0dio7KB7vBJnbNXthZn7jvV5fPqTOfXewQfVsFJuybAsr3w7WTS6amJyvUWjCn8U4sKk67bXetA0VoGByTaekzOwKLLCD1VFQ4u4hOQ8fpOe9Yis5i0qt0XU-ys0Ffrjv7ecXJeqXlmd_HNRDm3AbX9nUJXmN9nFUDE0OCzDTTFTzSuWwEGuPBJearEt2eSeS7Fc8oMlbRRvbOjpE2EtTtD8p0DsBc_jPYK-8Usnc/https%3A%2F%2Fsslgate.uni-luebeck.de%2Fowa%2F%2CDanaInfo%3Dwebmail.uksh.de%2CSSL%2B MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://secure-web.cisco.com/15uhZPgBC1AIlkY28uAICPQga2oSml8UpQWNMpilTQ-llrs...https://secure-web.cisco.com/1LBiUwtsltNc-BXRSlxA10cSmuxQKqQl4sLcRE1H3NCCq2vGw0swx3IfC81XRmy7z1IrAh7lXjgPQ96LK354kvmKn-WrNDNAFBXIDNiMVRD5WkM8p5MB_vFCTRq5COXOEKflOu6h3lw7379CjbMMnAihysVLFSE6rf-_AFLUtifPf0U73Otg9dDFW8a5awflJrD1DZCe1CcQCvit6BAdttOtXS4NKvkGLm-RGLBYXZFdnwY7MJ4Ebule-HDaEGvi4gl2ePPDGXxrIcwIqbqrDbN4idM9jhJhrdgX4FcQCSAXQF41yQCpTq6IfUGqYCwiIlvOh2Z2Hz0OqFNRufaXZWM18jbJ7tnwrrfeOg-Yd_Ow/https%3A%2F%2Ftranslationalpsychiatry.de%2Falexandra-korda%2F
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