Hi everyone.
I am using the following pipeline to analyze my fMRI data in a multi-subject multi-session setup.
1. Pre-processing data (brain extraction, segmentation, motion correction, regressing CSF out, normalization to MNI space)
2. GLM on single session level
3. within subject fixed-effect model
4. Within group analysis
5. Between group contrast.
I input my pre-processed image in MNI space to find beta-values of my estimators using FEAT (first-level analysis, statistics)
After I get the single-session level, I cannot proceed to the 3rd step, since FSL requires the registration files. why registration files are required for higher level analysis when all of the images are already in MNI space? Is GLM applied on each voxel before registering them in MNI space? If yes, then how can someone apply GLM on a pre-registered image using FEAT? if no, then does it make sense to just use the registration files I got during my pre-processing for higher-level analysis?
My appreciations,
Ehsan Kakaei
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