Hi. I'm relatively new to working with FSL. I would like to cross-register (co-register) one person's functional data to a reference brain, and I am looking for the best way to do this. Currently, I am using the "Low res image --> High res image --> Reference image" Mode in FLIRT to do this. I put our standard brain into the "Reference image" window, the participant's T1-weighted structural image into the "High res image" window, and the participant's 4D functional image (i.e., a file with all of the participant's functional data) into the "Low res image" window. Should this work? Is this the best way to do this cross registration (co-registration) using FSL? Is there anything I should be aware of or better method you could tell me about? Thanks for your attention to this question.
Best,
Theresa
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