Dear freesurfers,
I contrast depression and control and find that patients have a lower
thickness in region of inferior frontal gyrus. Now, I want to extract the data
of thickness for each subject. Could you tell which command could do this?
Thank you
Wang Kangcheng ( New learner of freesurf
I am attempting to do volume-based analysis using a data from normals as my
control. Does fsaverage provide volume-based data for this purpose? Where can I
find these values? Are they found anywhere outside of the freesurfer suite?
Thanks in advance!
_
Yes! If Im not mistaken, ADNI is acquiring this type of data on 3T platforms.
Cheers
Eugenio
Juan Eugenio Iglesias
Postdoctoral researcher BCBL
www.jeiglesias.com
www.bcbl.eu
Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer
- Original Message -
From: Kev
To: Free
Hi,
The messages I am sending to free sur...@nmr.mgh.harvard.edu are not showing up
on the site here:
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/maillist.html. But
they are showing up on the digest emails that I am receiving. Is that normal?
For example, the message pasted be
Much appreciated Eugenio.
I had read a paper where authors report using a ultra high field scanner (7T -
Cho Z-H, et al. J Psychiatr Res 2010; 44: 881–886), and I notice the reference
you kindly provided uses a 4T scanner...
I presume using a 3T might be stretching things a bit, and I wonder wh
Hi Andrea
did you try running it with -bigventricles?
cheers
Bruce
On Thu, 12 Jun 2014, Andrea
Horváth wrote:
Dear Freesurfer Experts,
I have two questions:
1. How can I add a previously created a tumor mask along with the mprage to
improve segmentation?
2. I ran recon-all on a subject wi
Hi Zeki
I'm using OSX 10.7.5. And, yes I have installed XQuartz as instructed by
the freesurfer installation website.
Thanks!
Joon
--
Joonkoo Park, Ph.D.
Postdoctoral Associate
Center for Cognitive Neuroscience
Duke University
http://www.joonkoo.org/
On Thu, Jun 12, 2014 at 11:51 AM, Z K wro
Hi Joon,
What version of OSX are you on and have you installed XQuartz
(http://xquartz.macosforge.org/landing/)? XQuartz is required for proper
tkmedit/tksurfer functionality.
-Zeke
On 06/11/2014 11:48 PM, Joonkoo Park, Ph.D. wrote:
> Hello,
>
> I've used FreeSurfer previously on a linux machi
FWIW: In FS 5.3, -autorecon2-cp and -autorecon2-wm invoke the exact same
set of flags. (This wasn't the case in earlier versions).
cheers,
-MH
--
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington Un
Hi Jidan
for your first point, if you make both wm edits and add control points you
can run -autorecon2-cp -autorecon3 as it is a superset of -autorecon2-wm.
For the second one, it's hard to diagnose from the single slice. Is there
white matter through-plane that is not included in the white
Hi Alessia
I did, and unfortunately I'm not sure there is much I can do. One of the
(long) list of engineering thing we would like to fix is how we deal with
the initial nromalization of subject positioning. At the moment, the scans
you sent me will be resliced differently, and it is that inte
Dear Freesurfer community,
Whenever i try to launch the tracula preprocessing, using "set dob0 = 1 " and
the following command line:
trac-all -prep -no-isrunning -c
'/home/elia/scripts/Tracula/LCL/Tracula-B0-Input_zip/tracula.config
It stops, giving me errors like these:
niiRead(): error opening
Dear Kev,
for the subfields, people have been acquiring T2 scans with high in-plane
(coronal) resolution like the ones in this paper:
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1820772/
The subfield atlas in FreeSurfer cannot handle such scans, but we will
(hopefully soon) release a version that
Dear Bruce,
did you see the images that I have sent you?
Thanks,
Alessia Giuliano
From: alessia_giuli...@hotmail.it
To: freesurfer@nmr.mgh.harvard.edu
Date: Fri, 6 Jun 2014 06:46:29 +
Subject: Re: [Freesurfer] Corpus Callosum segmentation reliability
Dear Bruce,
the two subject dirs are he
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