yes, I think so Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote:
So, as a measure of whole brain cortical thickness average is it better to "Mean Thickness" from aparc.stats file?
2012/10/30 Bruce Fischl fischl@nmr.mgh.harvard.edu Hi Daniel
the parcellations are not uniform in size, and therefore the average of them will not be the same as averaging over the cortex. cheers Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote: Hi, I was wondering what should I use as an average of cortical thickness for the whole cortex. The aparc.stats output gives a value of "Mean Thickness" for each hemisphere. But this value does not coincide with the one I get if I average the 34 variables from aparc.stats. Do you know why? thanks so much in advance DanielThe 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.
Please, is there any automatic way to extract this "Mean Thickness" values for lh and rh for a big group of subjects? As for example aparcstats2table?
thank you very much
Daniel
2012/10/30 Bruce Fischl fischl@nmr.mgh.harvard.edu
yes, I think so
Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote:
So, as a measure of whole brain cortical thickness average is it better to
"Mean Thickness" from aparc.stats file?
2012/10/30 Bruce Fischl fischl@nmr.mgh.harvard.edu Hi Daniel
the parcellations are not uniform in size, and therefore the average of them will not be the same as averaging over the cortex. cheers Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote: Hi, I was wondering what should I use as an average of cortical thickness for the whole cortex. The aparc.stats output gives a value of "Mean Thickness" for each hemisphere. But this value does not coincide with the one I get if I average the 34 variables from aparc.stats. Do you know why? thanks so much in advance DanielThe 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/**compliancelinehttp://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.
You can get thickness with aparcastats2table with the -m thickness option. This gives you a measure of mean thickness for the hemisphere as well. do8ug
On 10/30/2012 11:02 AM, Daniel Ferreira wrote:
Please, is there any automatic way to extract this "Mean Thickness" values for lh and rh for a big group of subjects? As for example aparcstats2table?
thank you very much
Daniel
2012/10/30 Bruce Fischl <fischl@nmr.mgh.harvard.edu mailto:fischl@nmr.mgh.harvard.edu>
yes, I think so Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote: So, as a measure of whole brain cortical thickness average is it better to "Mean Thickness" from aparc.stats file? 2012/10/30 Bruce Fischl <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> Hi Daniel the parcellations are not uniform in size, and therefore the average of them will not be the same as averaging over the cortex. cheers Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote: Hi, I was wondering what should I use as an average of cortical thickness for the whole cortex. The aparc.stats output gives a value of "Mean Thickness" for each hemisphere. But this value does not coincide with the one I get if I average the 34 variables from aparc.stats. Do you know why? thanks so much in advance Daniel 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
Hi Douglas,
Well, I usually use aparcstats2table with -m thickness, but what I get is the thickness for all those 34 hemisphere regions, but not that measure of mean thickness for the hemisphere. Could I be missing something?
thanks Daniel
Message: 15 Date: Tue, 30 Oct 2012 11:17:56 -0400 From: Douglas N Greve greve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] average measure of cortical thickness To: freesurfer@nmr.mgh.harvard.edu Message-ID: 508FEFA4.9070105@nmr.mgh.harvard.edu Content-Type: text/plain; charset=ISO-8859-1; format=flowed
You can get thickness with aparcastats2table with the -m thickness option. This gives you a measure of mean thickness for the hemisphere as well. do8ug
2012/10/30 Daniel Ferreira danifer@ull.es
Please, is there any automatic way to extract this "Mean Thickness" values for lh and rh for a big group of subjects? As for example aparcstats2table?
thank you very much
Daniel
2012/10/30 Bruce Fischl fischl@nmr.mgh.harvard.edu
yes, I think so
Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote:
So, as a measure of whole brain cortical thickness average is it better
to "Mean Thickness" from aparc.stats file?
2012/10/30 Bruce Fischl fischl@nmr.mgh.harvard.edu Hi Daniel
the parcellations are not uniform in size, and therefore the average of them will not be the same as averaging over the cortex. cheers Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote: Hi, I was wondering what should I use as an average of cortical thickness for the whole cortex. The aparc.stats output gives a value of "Mean Thickness" for each hemisphere. But this value does not coincide with the one I get if I average the 34 variables from aparc.stats. Do you know why? thanks so much in advance DanielThe 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/**compliancelinehttp://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.
Is the last item in the list "lh_MeanThickness_thickness" This is the mean thickness across the hemisphere. doug
On 10/31/2012 05:16 AM, Daniel Ferreira wrote:
Hi Douglas,
Well, I usually use aparcstats2table with -m thickness, but what I get is the thickness for all those 34 hemisphere regions, but not that measure of mean thickness for the hemisphere. Could I be missing something?
thanks Daniel
Message: 15 Date: Tue, 30 Oct 2012 11:17:56 -0400 From: Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] average measure of cortical thickness To: freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu Message-ID: <508FEFA4.9070105@nmr.mgh.harvard.edu mailto:508FEFA4.9070105@nmr.mgh.harvard.edu> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
You can get thickness with aparcastats2table with the -m thickness option. This gives you a measure of mean thickness for the hemisphere as well. do8ug
2012/10/30 Daniel Ferreira <danifer@ull.es mailto:danifer@ull.es>
Please, is there any automatic way to extract this "Mean Thickness" values for lh and rh for a big group of subjects? As for example aparcstats2table? thank you very much Daniel 2012/10/30 Bruce Fischl <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> yes, I think so Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote: So, as a measure of whole brain cortical thickness average is it better to "Mean Thickness" from aparc.stats file? 2012/10/30 Bruce Fischl <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> Hi Daniel the parcellations are not uniform in size, and therefore the average of them will not be the same as averaging over the cortex. cheers Bruce On Tue, 30 Oct 2012, Daniel Ferreira wrote: Hi, I was wondering what should I use as an average of cortical thickness for the whole cortex. The aparc.stats output gives a value of "Mean Thickness" for each hemisphere. But this value does not coincide with the one I get if I average the 34 variables from aparc.stats. Do you know why? thanks so much in advance Daniel 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
-
Bruce Fischl -
Daniel Ferreira -
Douglas N Greve