Hi all,
What is the best way to calculate total brain volume? It seems that there are multiple ways to do it--mris_volume and mris_wm_volume, add up the structures in the aseg.stats and ?h.aparc.stats files, or using the BrainSegVol or BrainSegVolNotVent from aseg.stats.
What do you recommend?
Thanks! Justin
Hi Justin, It partly depends on what exactly you want when you say "brain volume". Do you want a measure of estimated intracranial volume (intended to be independent of atrophy)? A measure of gray matter + white matter + ventricles? Or only gray matter + white matter? Do you care whether the cerebellum is included or not?
cheers, -MH
On Wed, 2011-01-26 at 12:52 -0600, Justin Eisenberg wrote:
Hi all,
What is the best way to calculate total brain volume? It seems that there are multiple ways to do it--mris_volume and mris_wm_volume, add up the structures in the aseg.stats and ?h.aparc.stats files, or using the BrainSegVol or BrainSegVolNotVent from aseg.stats.
What do you recommend?
Thanks! Justin -- Justin Eisenberg Washington University in St. Louis Arts & Sciences | 2013 JEisenberg@wustl.edu JEisenberg323@gmail.com 262.914.4648
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Dear experts,
I would like to extract certain sulcal ribbons from brain surface and create a probability map for each sulcus type. I was wondering if freesurfer generates sulcal ribbons (or sulci curves on the flatten surface) in the subject space.
Thank you, Amir
On 1/26/2011 3:13 PM, Michael Harms wrote:
Hi Justin, It partly depends on what exactly you want when you say "brain volume". Do you want a measure of estimated intracranial volume (intended to be independent of atrophy)? A measure of gray matter + white matter + ventricles? Or only gray matter + white matter? Do you care whether the cerebellum is included or not?
cheers, -MH
On Wed, 2011-01-26 at 12:52 -0600, Justin Eisenberg wrote:
Hi all,
What is the best way to calculate total brain volume? It seems that there are multiple ways to do it--mris_volume and mris_wm_volume, add up the structures in the aseg.stats and ?h.aparc.stats files, or using the BrainSegVol or BrainSegVolNotVent from aseg.stats.
What do you recommend?
Thanks! Justin -- Justin Eisenberg Washington University in St. Louis Arts& Sciences | 2013 JEisenberg@wustl.edu JEisenberg323@gmail.com 262.914.4648
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
no, sorry, we don't generate sulcal ribbons, although it wouldn't be too hard to generate a skeleton from the flattened parcellaton
cheers Bruce On Wed, 26 Jan 2011, Amir Tahmasebi wrote:
Dear experts,
I would like to extract certain sulcal ribbons from brain surface and create a probability map for each sulcus type. I was wondering if freesurfer generates sulcal ribbons (or sulci curves on the flatten surface) in the subject space.
Thank you, Amir
On 1/26/2011 3:13 PM, Michael Harms wrote:
Hi Justin, It partly depends on what exactly you want when you say "brain volume". Do you want a measure of estimated intracranial volume (intended to be independent of atrophy)? A measure of gray matter + white matter + ventricles? Or only gray matter + white matter? Do you care whether the cerebellum is included or not?
cheers, -MH
On Wed, 2011-01-26 at 12:52 -0600, Justin Eisenberg wrote:
Hi all,
What is the best way to calculate total brain volume? It seems that there are multiple ways to do it--mris_volume and mris_wm_volume, add up the structures in the aseg.stats and ?h.aparc.stats files, or using the BrainSegVol or BrainSegVolNotVent from aseg.stats.
What do you recommend?
Thanks! Justin -- Justin Eisenberg Washington University in St. Louis Arts& Sciences | 2013 JEisenberg@wustl.edu JEisenberg323@gmail.com 262.914.4648
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks Bruce for your reply.
This is actually helpful. Could you please briefly describe how can I generate the skeleton?
Thank you, Amir
On 1/27/2011 10:33 AM, Bruce Fischl wrote:
no, sorry, we don't generate sulcal ribbons, although it wouldn't be too hard to generate a skeleton from the flattened parcellaton
cheers Bruce On Wed, 26 Jan 2011, Amir Tahmasebi wrote:
Dear experts,
I would like to extract certain sulcal ribbons from brain surface and create a probability map for each sulcus type. I was wondering if freesurfer generates sulcal ribbons (or sulci curves on the flatten surface) in the subject space.
Thank you, Amir
On 1/26/2011 3:13 PM, Michael Harms wrote:
Hi Justin, It partly depends on what exactly you want when you say "brain volume". Do you want a measure of estimated intracranial volume (intended to be independent of atrophy)? A measure of gray matter + white matter + ventricles? Or only gray matter + white matter? Do you care whether the cerebellum is included or not?
cheers, -MH
On Wed, 2011-01-26 at 12:52 -0600, Justin Eisenberg wrote:
Hi all,
What is the best way to calculate total brain volume? It seems that there are multiple ways to do it--mris_volume and mris_wm_volume, add up the structures in the aseg.stats and ?h.aparc.stats files, or using the BrainSegVol or BrainSegVolNotVent from aseg.stats.
What do you recommend?
Thanks! Justin -- Justin Eisenberg Washington University in St. Louis Arts& Sciences | 2013 JEisenberg@wustl.edu JEisenberg323@gmail.com 262.914.4648
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Amir Tahmasebi -
Bruce Fischl -
Justin Eisenberg -
Michael Harms