I am trying to generate my template fsf files for fsl. I’m using fmriprep for the preprocessing.
I watched this helpful video https://www.youtube.com/watch?v=U3tG7JMEf7M which clarified what I need to do to make the higher level analyses work. However, when I run the 1st level analyses should I turn off these settings
- Mcflirt motion correction
- spatial smoothing
- high pass filtering
and then run the full analyses using the MNI standard brain in the registration?
Also, just to be sure, I should NOT use the “bold_space-MNI152NLin2009cAsym_preproc.nii.gz”
Nifti file produced by fmriprep for my 4d directory right? It should just be the raw functional file right?