Hi John
the atlas isn't flair-based (and is done before the flair processing). I
thought we always generated both (plus Christophe's for 3 total), so I'm
a bit confused
cheers
Bruce
On Thu, 31 Aug 2017, John Anderson wrote:
Hi Emma,
Thank you for your response.
I am running my recons using V5.3 and V6.0
In the data base I have ~200 T1 images and for some I have FLAIR images.
When I run recon all with the flag FLAIR I get the file
"aparc.DKTatlas+aseg.mgz" in FS5.3 and FS6.0
If I run recon-all without the flag FLAIR i don't see the file
aparc.DKTatlas+aseg.mgz
as an output of FS5.3 or FS6.0
I am a bit confused about this!! Is this atlas FALIR-based or I am doing
something wrong?!
-------- Original Message --------
Subject: Re: [Freesurfer] aparc.DKTatlas+aseg.mgz
Local Time: August 31, 2017 3:11 PM
UTC Time: August 31, 2017 7:11 PM
From: ebo...@mgh.harvard.edu
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>, John Anderson
<john.ande...@protonmail.com>
Hi John,
Which version of FreeSurfer are you running?
Emma
---------
Emma Boyd
Research Technician II
Laboratory for Computational Neuroimaging
Martinos Center for Biomedical Imaging
____________________________________________________________________________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on
behalf of John Anderson <john.ande...@protonmail.com>
Sent: Thursday, August 31, 2017 12:17 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] aparc.DKTatlas+aseg.mgz
Dear experts,
looking into the output of Freesurfer in this
page https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllOutputFiles
I see that there should be a file named "aparc.DKTatlas+aseg.mgz". Is this
atlas can be
generated with the presence of FLAIR images.
When i run recon-all without FLAIR or T2 I don't see this atlas!! Is this atlas
FLAIR -based?
thank you for any clarification
John
-------- Original Message --------
Subject: aparc.DKTatlas+aseg.mgz
Local Time: August 30, 2017 7:49 PM
UTC Time: August 30, 2017 11:49 PM
From: john.ande...@protonmail.com
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Dear experts,
looking into the output of Freesurfer in this
page https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllOutputFiles
I see that there should be a file named "aparc.DKTatlas+aseg.mgz". Do I need
FLAIR
images to get this file.
I ran the command recon-all --s subj --all and I can';t find this file
thank you for any clarification
John
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