Hi Doug & others,
I am trying to use reg-feat2anat as it is described on the FSL web page: http://www.fmrib.ox.ac.uk/fsl/freesurfer/index.html
However, I always seem t get a very bad registration. I tried using different values for --maxangle --cost mutualinfo --bins, but maintained --dof always at 6 for rigid body registration of the T1 and EPI, but didn't gt any good results. Initially I thought it might be because reg-fea2anat does not use a skull-stripped T1, but when I run Feat using the T1.mgz (converted to .nii.gz) as the main structural image for Registration (and the MNI brain as standard space), both with 'Full Search' option and dof = 6, the registration (with FEAT) works well. Is there anything else I can try to make it work with reg-feat2anat. Why wouldn't the registration work on my data with reg-feat2anat given that it works with Feat?
Any comments or suggestions would be very appreciated.
best,
Sandy
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