what version of FS are you using? What is your bbregister command line?
You should not smooth the data before alignment (usually you would use
the template used for MC). You should also make sure that the
deobliquing does not mess up the geometry info in the nifti file. Load
the template file i
Dear Freesurfer Team,
I am an image processing novice and am trying to register resting-state
data to an anatomical scan using bbregister. The T1s have been run through
Freesurfer's reconall pipeline, and the EPIs have undergone the following
preprocessing steps:
- slice time correctoin
- deobliqu
