Hi Ali,
It should work with the old processed data.
--Thomas
On Sun, Sep 20, 2015 at 12:00 AM, Ali Radaideh wrote:
> Dear Thomas,
>
> Many thanks for your detailed explanation. I will try it and let you know.
>
> One more question please, last year, I processed another set of subjects
> using a
Dear Thomas,
Many thanks for your detailed explanation. I will try it and let you know.
One more question please, last year, I processed another set of subjects
using an older version of FreeSurfer 5.0. Now the old version has been
replaced with its new one (5.3.0) on the same PC. In other words,
Hi, I had posted this earlier and am still having issues.
Thank you,
I tried running the Hippocampal Segmentation using the Dev version, I get the
following error (running on a mac os x Yosemite):
I just downloaded the dev version a couple of days ago. Recon-all -all runs
fine, but it's
Hi Ali,
Sorry, I wasn't clear. The 7 and 17 network atlases are released with
FreeSurfer 5.3. In particular, the "annot" files are found in
$FREESURFER_HOME/subjects/fsaverage/label/. Therefore since you have
already run recon-all using FreeSurfer, then this means that you do
not need to "save" th
Hi listi,
the following error now occur:
--- matlab output
< M A T L A B (R) >
Copyright 1984-2014 The MathWorks, Inc.
R2014a (8.3.0.532) 64-bit (maci64)
February 11, 2014
Hello Doug,Thanks for the answer, my intention is to compute percent difference
between groups in area (and separately for area.pial). About the contrast, you
said that in order to compute the percent difference between groups I need to
specify a contrast for each group separately (think would b
Also, could you please direct me in which directory I should save the new
atlas?
Thanks,
Ali
On Sat, Sep 19, 2015 at 9:47 AM, Thomas Yeo wrote:
> Hi Ali,
>
> May I confirm that your data is T1 and not functional data? Here's
> what you can do to transfer the parcellation to your individual
> su
Dear Thomas,
Thanks for your email. Our data are whole head T1 weighted images. I am
using tcsh shell.
May I ask you please to simplify your instruction as I am not very familiar
with these things?. However, I can follow any simple instructions and make
the required changes.
Many thanks for your
Hi Ali,
May I confirm that your data is T1 and not functional data? Here's
what you can do to transfer the parcellation to your individual
subject's surface mesh. After that you can use the usual commands to
extract thickness, etc.
In your shell (assuming you are using c shell)
# First set varia
Dear FreeSurfer experts,
I have finished processing a group of brains MR images collected at 7T
scanner using freesurfer 5.3.0 (Ubuntu 64 bits machine).
However, we need to get the cortical parcellation based on functional
network connectivity. So I have downloaded the Atlas data
(Yeo_JNeurophysi
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