Hi Gonzalo, the segmentation that you are seeing is paired with the
insula parcellation.
doug
On 05/30/2013 04:36 PM, Gonzalo Rojas Costa wrote:
Hi Doug:
The command is:
mri_aparc2aseg --s OAS1_0001_MR1 --labelwm --hypo-as-wm --rip-unknown
--volmask --o mri/lobulitos.mgz --annot
don't know what's going on. Can you upload the subject to our file drop?
doug
On 05/30/2013 04:36 PM, Gonzalo Rojas Costa wrote:
Hi Doug:
The command is:
mri_aparc2aseg --s OAS1_0001_MR1 --labelwm --hypo-as-wm --rip-unknown
--volmask --o mri/lobulitos.mgz --annot lobulos --wmparc-dmax
Hi Douglas:
The file is the OAS1_0001_MR1 case of OASIS-BRAINS database that I
re-processed using freesurfer 5.2.0...
Sincerely,
Gonzalo Rojas Costa
On Fri, May 31, 2013 at 12:12 PM, Douglas N Greve
gr...@nmr.mgh.harvard.edu wrote:
don't know what's going on. Can you upload the subject
colored region (red arrow)... Which
neuroanatomical area is ?...
Sincerely,
Gonzalo Rojas Costa
Message: 15
Date: Mon, 27 May 2013 22:41:41 -0400
From: Douglas Greve gr...@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] white matter volume per lobe...
To: freesurfer@nmr.mgh.harvard.edu
region (red arrow)... Which
neuroanatomical area is ?...
Sincerely,
Gonzalo Rojas Costa
Message: 15
Date: Mon, 27 May 2013 22:41:41 -0400
From: Douglas Greve gr...@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] white matter volume per lobe...
To: freesurfer@nmr.mgh.harvard.edu
Message
gr...@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] white matter volume per lobe...
To: freesurfer@nmr.mgh.harvard.edu
Message-ID: 51a41965.6050...@nmr.mgh.harvard.edu
Content-Type: text/plain; charset=ISO-8859-1; format=flowed
you will need to run mri_annotation2label and specify the output
Hi Doug:
The command is:
mri_aparc2aseg --s OAS1_0001_MR1 --labelwm --hypo-as-wm --rip-unknown
--volmask --o mri/lobulitos.mgz --annot lobulos --wmparc-dmax 200
and the terminal output is:
mri_aparc2aseg --s OAS1_0001_MR1 --labelwm --hypo-as-wm --rip-unknown
--volmask --o
gr...@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] white matter volume per lobe...
To: freesurfer@nmr.mgh.harvard.edu
Message-ID: 51a41965.6050...@nmr.mgh.harvard.edu
Content-Type: text/plain; charset=ISO-8859-1; format=flowed
you will need to run mri_annotation2label and specify the output
that you told me... But, why I get the gray
colored region (red arrow) ?...
Sincerely,
Gonzalo Rojas Costa
Message: 15
Date: Mon, 27 May 2013 22:41:41 -0400
From: Douglas Greve gr...@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] white matter volume per lobe...
To: freesurfer
] white matter volume per lobe...
To: freesurfer@nmr.mgh.harvard.edu
Message-ID: 51a41965.6050...@nmr.mgh.harvard.edu
Content-Type: text/plain; charset=ISO-8859-1; format=flowed
you will need to run mri_annotation2label and specify the output to be
an annotation file instead of a segmentation
you will need to run mri_annotation2label and specify the output to be
an annotation file instead of a segmentation. Then you will have to run
mri_aparc2aseg, specifying your lobes annotation as well as --labelwm
(look in the recon-all.log file for an example of how wmparc.mgz is
created).
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