How did you look at it (what was your command-line)? You should load it as a segmentation in tkmedit. What version of FS are you using? Older versions did not have CC defined, but it would have to be pretty old.

doug

On Tue, 8 Jun 2010, Ahmed, F, Me fahmed@sun.ac.za wrote:

Thank you for that Doug, I just had a look in the aseg.mgz file, but unless I'm blind, I can't seem to see it...could you tell me what it's labelled as please?

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Doug Greve Sent: 08 June 2010 10:53 To: Ahmed, F, Me fahmed@sun.ac.za Cc: Freesurfer Mailing List Subject: Re: [Freesurfer] brain regions

The corpus collosum is labeld in the auotmatic volume segmenation (aseg.mgz). The prefrontal cortex is subdivided into a number of regions in the auotmatic surface parcellation (lh.aparc.annot or rh.aparc.annot)

doug

On Tue, 8 Jun 2010, Ahmed, F, Me fahmed@sun.ac.za wrote:

...

Hello FS experts,

A quick question, I'm looking for specific brain regions, but I can't seem to find them in the files once processing has been completed, I'm just wondering if FS does processing for areas including prefrontal cortex and corpus collosum?

Thanks, Fatima

cmd line?

On Tue, 8 Jun 2010, Ahmed, F, Me fahmed@sun.ac.za wrote:

I'm running version 4.3.1

-----Original Message----- From: Doug Greve [mailto:greve@nmr.mgh.harvard.edu] Sent: 08 June 2010 11:01 To: Ahmed, F, Me fahmed@sun.ac.za Cc: Freesurfer Mailing List Subject: RE: [Freesurfer] brain regions

How did you look at it (what was your command-line)? You should load it as a segmentation in tkmedit. What version of FS are you using? Older versions did not have CC defined, but it would have to be pretty old.

doug

On Tue, 8 Jun 2010, Ahmed, F, Me fahmed@sun.ac.za wrote:

...

Thank you for that Doug, I just had a look in the aseg.mgz file, but unless I'm blind, I can't seem to see it...could you tell me what it's labelled as please?

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Doug Greve Sent: 08 June 2010 10:53 To: Ahmed, F, Me fahmed@sun.ac.za Cc: Freesurfer Mailing List Subject: Re: [Freesurfer] brain regions

The corpus collosum is labeld in the auotmatic volume segmenation (aseg.mgz). The prefrontal cortex is subdivided into a number of regions in the auotmatic surface parcellation (lh.aparc.annot or rh.aparc.annot)

doug

On Tue, 8 Jun 2010, Ahmed, F, Me fahmed@sun.ac.za wrote:

...

Hello FS experts,

A quick question, I'm looking for specific brain regions, but I can't seem to find them in the files once processing has been completed, I'm just wondering if FS does processing for areas including prefrontal cortex and corpus collosum?

Thanks, Fatima

Yes I do see values for cc in the stats file thank you!

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Allison Stevens Sent: 08 June 2010 12:29 To: Ahmed, F, Me fahmed@sun.ac.za Cc: Freesurfer Mailing List; Doug Greve Subject: Re: [Freesurfer] brain regions

You'll also find it listed in the aseg.stats file in the stats dir as cc-anterior, cc-posterior, etc. (labeled as the same when viewing the aseg.mgz in tkmedit). do you see values for the cc in the stats file?

On Jun 8, 2010, at 4:56 AM, "Ahmed, F, Me fahmed@sun.ac.za" fahmed@sun.ac.za wrote:

Thank you for that Doug, I just had a look in the aseg.mgz file, but unless I'm blind, I can't seem to see it...could you tell me what it's labelled as please?

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Doug Greve Sent: 08 June 2010 10:53 To: Ahmed, F, Me fahmed@sun.ac.za Cc: Freesurfer Mailing List Subject: Re: [Freesurfer] brain regions

The corpus collosum is labeld in the auotmatic volume segmenation (aseg.mgz). The prefrontal cortex is subdivided into a number of regions in the auotmatic surface parcellation (lh.aparc.annot or rh.aparc.annot)

doug

On Tue, 8 Jun 2010, Ahmed, F, Me fahmed@sun.ac.za wrote:

...

Hello FS experts,

A quick question, I'm looking for specific brain regions, but I can't seem to find them in the files once processing has been completed, I'm just wondering if FS does processing for areas including prefrontal cortex and corpus collosum?

Thanks, Fatima

-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422

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