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Dear Freesurfer Developers,
I have analyzed connectivity between striatum and different brain cortex
with diffusion weighted MRI.
I completed recon-all on all participants.
*SHINui-iMac:~ shinsangho$ recon-all -s NOR86_AHJ -i
~/sangho/NOR86_AHJ/NOR86_A
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Dear Freesurfer developers,
Is it possible to export the ROI segmentations that are stored
in ?h.aparc.a2009s.annot or ?h.aparc.annot files into the header of the
DICOM file? I would like to open those files with corresponding
segmentations in RayStati
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I meant to say "parcellations" instead of "segmentations".
Regards,
Vânia de Aguiar, PhD
Assistant Professor in Neurolinguistics
University of Groningen
Faculty of Arts
Oude Kijk in 't Jatstraat 26
Room 1315.0408
9712 EK, Groningen
The Netherlands
O
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Hi
From the 1st level analysis of an fMRI study I'm trying to extract the size
of the clusters of activation from each subject, but don't know how to go
about this. I know that for the group analysis you can get the cluster
sizes from the output from m
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Hello all Freesurfer experts!
Through my analysis I found that, if I plot the "white surface total area"
found in subjid/stats/?h.aparc.stats by sex, I as expected find that males have
overall larger surface area as compared to females.
When pl
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Hi,
I am trying to understand how exactly FreeSurfer estimates the curvature values
from the white surface. From the mailing lists I understood that the white
surface is modeled by fitting a second-order polynomial function and curvatures
are estima
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Hello FreeSurfer Developers,
I have installed the FreeSurfer how described here
https://surfer.nmr.mgh.harvard.edu/fswiki/WindowsSupport.
I launch an Ubuntu terminal and stat a freesurfer application from an Ubuntu
command line.
[cid:4348455d-9967-4
Hi Vânia
you can convert the aparc+aseg.mgz to nifti and find something that goes
from there to dicom, but we don't at the moment support writing dicom,
although I think Paul (ccd) has worked on it and might have something to
add
cheers
Bruce
On Thu, 3 Oct 2019, Correia
de Aguiar, V.M. wr
Hi Philipp
the Hessian is estimated at each vertex by doing a quadratic fit to the
local surface as the height function over the tangent plane of all the
vertices in a 2-neighborhood of that vertex. I'm not sure what the gradient
vanishing is about, but the curvatures are just the eigenvalues
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Hi FreeSurfer experts,
I want to converts a cortical stats file into a table by the aparcstats2table
command. However, there are totally 500 subjects. And it is really hard to
input subject numbers one by one. The Numbers are arranged in a regular wa
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Hi Vânia,
You can use this repository to convert some FreeSurfer outputs to dicom.
https://github.com/corticometrics/fs2dicom
Unfortunately, the aparc+aseg is not supported at this time, only the
aseg.mgz.
-Paul
On Thu, Oct 3, 2019 at 9:57 AM Bruce
Dear Freesurfers,
We need to install the last version of Freesurfer, but we need to keep the wm
edits that we made with version 5.3
How can this be done? Is there any specific command?
Thanks a lot,
Vale
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Freesurfer mailing list
Freesurfer@nmr.mgh.ha
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Hi,
I just installed freesurfer in Linux Ubuntu 14.04, and I got a critical
(and strange) problem in the earlier tests of freesurfer (Example 2). Any
help would be appreciated. Basically, when trying example 2 in instructions
homepage I got the follow
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You need to install the tcsh shell:
sudo apt-get install tcsh
Best,
Tim
> On October 3, 2019 at 6:30 PM Tim Schäfer wrote:
>
>
> You need to install the tcsh shell:
>
> sudo apt-get install tcsh
>
> Best,
>
> Tim
>
> > On October 3, 2019
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Hi Doug,
Thanks for your respond! I ran the the command with debug flag and figured
out the problem. It is because I use a space in the name of the PET data
directory. After removing the space character, tkregisterfv works great!
But one PET image did
Hi Vale
I think it should happen by default, but definitely test it on one
subject before you launch them all!
Bruce
On Thu, 3 Oct 2019, Barletta, Valeria
wrote:
> Dear Freesurfers,
> We need to install the last version of Freesurfer, but we need to keep the
> wm edits that we made with version
yes, depending on your hardware it can take >12 hours, particularly if
you aren't using -openmp
On Thu, 3 Oct 2019, Theotonio Pauliquevis wrote:
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Hi,
Thanks for the prompt reply.
After I installed tcsh it did run successfully.
Since this fixing
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