Hi FS users,
We've generated surfaces using FS v4.4 and would like to determine total brain tissue volume for each of our cases. Would this correspond to the 'Brain Segmentation Volume' which is standard in the output aseg.stats file.
How is the 'Brain Segmentation Volume' determined, and is it different than adding up the 49 fields in the aseg.stas (subtracting out csf, ventricles, etc).
What value best represents the total brain tissue volume?
Jim
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Hi Jim, in 4.4, the Brain Segmentation Volume is basically just an adding up of the volumes in aseg.stats, but it includes ventricles, so you would need to subtract those out. Newer versions of FS have a BrainSegVolNotVent which is the volume of tissue. doug
On 12/13/2012 12:32 PM, Alexopoulos, Dimitrios wrote:
Hi FS users,
We've generated surfaces using FS v4.4 and would like to determine total brain tissue volume for each of our cases. Would this correspond to the 'Brain Segmentation Volume' which is standard in the output aseg.stats file.
How is the 'Brain Segmentation Volume' determined, and is it different than adding up the 49 fields in the aseg.stas (subtracting out csf, ventricles, etc).
What value best represents the total brain tissue volume?
Jim
The materials in this email are private and may contain Protected Health Information. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return email.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Doug,
Thanks. When I add up all 49 fields in the aseg.stats I don't get the same number (actually larger) as the 'Brain Segmentation Volume'.
v4.4/aseg.stas also includes a 'Brain Segmentation Volume Without Ventricles'. I presume we can use this, and subtract out the CSF for total brain tissue?
Jim
________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [greve@nmr.mgh.harvard.edu] Sent: Thursday, December 13, 2012 11:34 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Total brain tissue volume
Hi Jim, in 4.4, the Brain Segmentation Volume is basically just an adding up of the volumes in aseg.stats, but it includes ventricles, so you would need to subtract those out. Newer versions of FS have a BrainSegVolNotVent which is the volume of tissue. doug
On 12/13/2012 12:32 PM, Alexopoulos, Dimitrios wrote:
Hi FS users,
We've generated surfaces using FS v4.4 and would like to determine total brain tissue volume for each of our cases. Would this correspond to the 'Brain Segmentation Volume' which is standard in the output aseg.stats file.
How is the 'Brain Segmentation Volume' determined, and is it different than adding up the 49 fields in the aseg.stas (subtracting out csf, ventricles, etc).
What value best represents the total brain tissue volume?
Jim
The materials in this email are private and may contain Protected Health Information. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return email.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
_______________________________________________ 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 Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
The materials in this email are private and may contain Protected Health Information. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return email.
Hi Alexopoulos, See wiki page below for definition of morphometry stats.
https://surfer.nmr.mgh.harvard.edu/fswiki/MorphometryStats
-Louis
On Thu, 13 Dec 2012, Alexopoulos, Dimitrios wrote:
Doug,
Thanks. When I add up all 49 fields in the aseg.stats I don't get the same number (actually larger) as the 'Brain Segmentation Volume'.
v4.4/aseg.stas also includes a 'Brain Segmentation Volume Without Ventricles'. I presume we can use this, and subtract out the CSF for total brain tissue?
Jim
From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [greve@nmr.mgh.harvard.edu] Sent: Thursday, December 13, 2012 11:34 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Total brain tissue volume
Hi Jim, in 4.4, the Brain Segmentation Volume is basically just an adding up of the volumes in aseg.stats, but it includes ventricles, so you would need to subtract those out. Newer versions of FS have a BrainSegVolNotVent which is the volume of tissue. doug
On 12/13/2012 12:32 PM, Alexopoulos, Dimitrios wrote:
Hi FS users,
We've generated surfaces using FS v4.4 and would like to determine total brain tissue volume for each of our cases. Would this correspond to the 'Brain Segmentation Volume' which is standard in the output aseg.stats file.
How is the 'Brain Segmentation Volume' determined, and is it different than adding up the 49 fields in the aseg.stas (subtracting out csf, ventricles, etc).
What value best represents the total brain tissue volume?
Jim
The materials in this email are private and may contain Protected Health Information. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return email.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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 Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
The materials in this email are private and may contain Protected Health Information. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return email.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Alexopoulos, Dimitrios -
Douglas N Greve -
Louis Nicholas Vinke