I have not tested the different methods to find out. I prefer the first method because it involves one fewer resampling steps. Also, if you have a newer version of freesurfer that uses BBR, then reg-feat2anat will use BBR, which will be more accurate. And do not spatially smooth your fMRI data for the surface-based processing.
doug
Agnieszka Burzynska wrote:
Dear all, I am trying to figure out how to bring my fMRI data from FSL to the freesurfer surface.
The way I understood it from the tutorial "3.0 Surface-based Group Functional Analysis"( http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/FslGroupFeat)
There are two possibilities of combining multiple runs per subject:
- using mris_preproc for each run and having runs as frames in the
lh.copex.mhg file
- running first gfeat in FSL and registering gfeat copes to fsaverage ( Runs
combined in a GFEAT within a Subject), which would result in 1-frame lh.copex.mhg file
I wonder if it is possible to say which procedure is better/more sensitive? Should the fmri data be non-smoothed before this step for both above options?
Thank you! Cheers, Aga
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