Have you looked at the tutorial?
https://surfer.nmr.mgh.harvard.edu/fswiki/FsFastTutorialV5.1/FsFastGroupLevel
On 7/20/2019 4:59 PM, FAST Study wrote:
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Dear Dr. Greve,
Will you please help me learn how to view the output of the paired t-test - via
mri_glmfi
Use mri_binarize --match segid --i aseg.mgz --o mask.mgz
where segid is the segmentation code (eg, left hippo is 17) from
$FREESURFER_HOME/FreeSurferColorLUT.txt
On 7/21/2019 2:09 AM, Dandil dNd wrote:
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Hi Bruce,
Thank you for your reply. I want to create a
There is nothing in the log file that indicates a problem. Was there anything
else printed to the screen? Try running this command to see if it works
cd Users/adomas/Desktop/test/Subj001/scripts
mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
On 7/21/2019 8:54 AM, Adomas Bunevicius
Dear Freesurfer experts,
I’m running into a problem with mri_robust_template when trying to align
multiple T1 images (this is with Freesurfer 6.0.1).
I’m using fmriprep 1.4.1 to preprocess subjects from the OASIS3 dataset (or at
least, attempting to). Each subject has 5-7 T1 scans over 3-4 tim
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Hello Freesurfer support team,
I am trying to create accurate white/pial surfaces, however, due to signal
drop-out, Freesurfer is consistently underestimating the pial surface -- a
problem which I am only able to fix using control points. Unfortunately
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Hi Tom,
basically most of it looks OK to me, just a few remarks:
I assume that you deliberately chose the plain mass-univariate approach instead
of the potentially more powerful spatiotemporal mass-univariate approach.
For the interpretation of the
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Hi Bronwyn,
sorry for the late reply, and thanks for the detailed mail.
I have to admit that at the moment I do not see anything obvious.
If you can share it, you might upload a Matlab mat file with one or more
'F_lhstats' and 'F_rhstats' example
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Hi,
I would like to create a registration matrix from orig.mgz to diffusion
space. I created a reg file with
bbregister --t2 --init-fsl --reg /data/FS/sub01/reg.dat --mov
/data/FS/sub01/B0.nii.gz --s sub001
but how can I invert this registration so th
In most of the tools there is an option to invert the matrix before you
apply it. If you save the registration matrix as an LTA instead of DAT,
then most of the tools will figure out the directionality.
On 7/22/19 4:24 PM, Sam W. wrote:
>
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>
> Hi,
> I would
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Thanks Doug! I'll use lta then, but which tool do you recommend I use for
inverting the matrix in order to have a freesurfer-to-diffusion
registration matrix? bbregister does not seem to offer the option to invert
matrices. Is tkregister2 the preferable
Use lta_convert with --invert. BTW, the registration matrix is already
anat-to-diffusion
On 7/22/2019 7:50 PM, Sam W. wrote:
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Thanks Doug! I'll use lta then, but which tool do you recommend I use for
inverting the matrix in order to have a freesurfer-to-diff
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