,
Cheryl
--
Cheryl McCreary, PhD
MR Research Manager
University of Calgary
Ph: 403 944 8781 or 403 210 6258
recon-all.error
Description: recon-all.error
recon-all.log
Description: recon-all.log
___
Freesurfer mailing list
Freesurfer
Dear fs Experts,
In the most recent Freesurfer Digest (vol102, Issue13), a question regarding
ICV calculations in version 5.1.0 was raised (message 4). Can you please
expand on the problems with this? I am using version 5.1.0 and the estimate of
ICV is of interest.
Thanks,
Cheryl McCreary
Dear Freesurfer experts,
I have recently processed a group of subjects and am interested in the eTIV
and brain volume to estimate the brain parenchymal fraction. The values that
eTIV from the asegstats seem to be underestimated.
I understand that the eTIV is based on an atlas scaling factor
...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve
[gr...@nmr.mgh.harvard.edu]
Sent: Thursday, December 15, 2011 3:02 PM
To: Cheryl McCreary
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Estimate Brain Volume Fraction
total cortical WM should
of the total
GM, total cortical WM, brain stem, cerebellar GM and WM minus the CSF. Or
do the volumes of the ventricles need to be subtracted as well?
Thanks for your help.
Cheryl
--
Cheryl McCreary
Seaman Family MR Research Centre
Foothills Medical Centre
1403 29th Street NW
Calgary, AB
T2N 2T9
--surf-ctx-vol --totalgray
--ctab /usr/local/freesurfer/dev/ASegStatsLUT.txt --brain-vol-from-seg
This is the same command that generated the existing aseg.stats file
with --brain-vol-from-seg added.
doug
Cheryl McCreary wrote:
Hi Freesurfer experts,
I would like to determine
...@nmr.mgh.harvard.edu wrote:
Hi Cheryl,
1) Yes, just use save not save as
2) this information is already generated and can be found in the
aseg.stats in each subject's stats dir. Some of the information is at the
top of that file.
On Mon, 31 Jan 2011, Cheryl McCreary wrote:
Hi,
I'm new
subject's stats dir. Some of the information is at the
top of that file.
On Mon, 31 Jan 2011, Cheryl McCreary wrote:
Hi,
I'm new to Freesurfer and am trying to process some data for the first
time. I have two questions:
1. I have done some manual editing of the brainmask
:
I'm not actually sure. What are the files that appeared there?
On Tue, 1 Feb 2011, Cheryl McCreary wrote:
Hi Allison,
Is there a way into incorporate these files into the brainmask without
having to redo the edits? I processed a number of subjects this way, using
'save main volume
Hi,
I'm new to Freesurfer and am trying to process some data for the first
time. I have two questions:
1. I have done some manual editing of the brainmask for skullstripping,
saving the edits using 'Save As' and the default names. This seems to create
a new group of files separate from the
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