Hi Heidi - The config file that you sent looked fine to me. What is the
trac-all command line that you run, and do you get any other output (like a
trac-all.log file)?
Best,
a.y
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Heidi Emmanuel Foo
S
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Dear developers
I have a question on how could I segment two registered MRI images and
get only one segmentation result, by command recon-all ?
In details, I have two MRI images which are T1-weighted and
T2-weighted. They a
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We are looking for an Engineer with skills in computer vision, programming
and machine learning to collaborate in the research project entitled:
"Study of the retina and the visual pathway by neuroimaging in genetic and
aggressive idiopathic synucleinop
Most of FS/recon-all will run using the T1 only. The T2 can be used to refine
the pial surface (-T2 T2file.mgz -T2pial)
On 9/18/18 4:56 AM, limiyu wrote:
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Dear developers
I have a question on how could I segment two registered MRI images and
get o
Hi Jo
the resolution requiirement is determined by cortical geometry. Once you
get to about 2mm, you can no longer resolve the cortex in many places,
and even worse you start losing the ability to resolve adjacent banks of
a sulcus, resulting in topological catastrophes in the resulting models
how much? Maybe we should expand the default range? I thought it was
already pretty broad, but I haven't looked at it in a long time
Glad to hear it worked out
cheers
Bruce
On Tue, 18
Sep 2018, Chris Adamson wrote:
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Thanks Bruce.
I had to incr
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Dear Bram,
It looks like the -bigventricles flag fixed my problem with my specific
subject. Not only, this took into account large ventricles but also
corrected grey matter segmentation from extra Dura tissue that was
erroneously segmented in GM.
I un
Hi Matthieu
yes, you will want to run all of your subjects with it
cheers
Bruce
On Tue, 18 Sep 2018,
Matthieu Vanhoutte wrote:
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Dear Bram,
It looks like the -bigventricles flag fixed my problem with my specific
subject. Not only, this took
into
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Hi Bruce,
Thanks, but in this case will recon-all with -bigventricles flag work well
on normal patients without big ventricles ?
Best,
Matthieu
2018-09-18 15:56 GMT+00:00 Bruce Fischl :
> Hi Matthieu
>
> yes, you will want to run all of your subject
I think it should be ok. It will be a bit slower, but shouldn't reduce
accuracy I don't think. Try it and see
Bruce
On Tue, 18 Sep 2018, Matthieu
Vanhoutte wrote:
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Hi Bruce,
Thanks, but in this case will recon-all with -bigventricles flag work we
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Ok I will test it on normal subjects.
Do I have to put this -bigventricles flag on all recon-all commands
following manual editing of brainmask, white matter,...etc or just once at
the first recon-all -all command ?
Best,
Matthieu
Le mar. 18 sept. 20
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Re-posting to see if anyone has had this problem before and solutions
they've implemented.
> Hi Freesurfer team,
>
> We’re having some trouble with the T2pial option. We are currently getting
> the Martinos Center ABCD project Tisdall/van der Kouwe vN
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