On 6/15/2022 1:26 PM, Kuo, Yi-Ling wrote:
Hello,
The below solutions sounded like data need to be analyzed with
Freesurfer individually to get the registration file?
The anatomical must be analyzed in FS, but not the fMRI. See eg
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultiModal_freeview
I realized that the stats can be presented in Freeview with the
correct locations in T1, but when it comes to inflated surface, the
BOLD signals always present in a specific location regardless of
dataset (please see the attached figure, looks like it’s a
registration issue). I wonder if the data were already analyzed by FSL
in group level, is it possible to present the analyzed group data on
inflated surface in Freeview?
Yes, see web page above
Thank you again for helping,
Irene
*From: *freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve
<dgr...@mgh.harvard.edu>
*Date: *Wednesday, June 8, 2022 at 11:15 AM
*To: *freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
*Subject: *Re: [Freesurfer] Freeview GUI overlay and registration
You will need an lta file that maps from the anatomical to the fmri.
You can get this with something
bbregister --mov template.nii.gz --s subject --t2 --reg reg.lta
where template.nii.gz is the fmri motion correction template or the
mean fmri (I forgot what it is called in FSL)
On 6/3/2022 5:12 PM, Kuo, Yi-Ling wrote:
Hi Freesurfer experts,
I am trying to use the Freeview GUI to load fMRI BOLD activation
data (analyzed in FSL) and project on the inflated surface. I used
the feature “Overlay/Load generic” and was prompted to select
overlay file and/or apply registration. The selected overlay file
didn’t seem to project on the right spot on the inflated surface
as would be seen in T1. If registration was the issue, what
registration file should be selected in the Freeview GUI?
My Freeview was updated. Thank you very much for helping.
Irene
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