Can I use fmriprep to analyze only the anatomical part?
Hi @Michelle, and welcome to neurostars!
Yes you can, with the --anat-only flag, but I would suggest using smriprep to do this, as this is the anatomical pipeline invoked by fMRIprep.
Best,
Steven
kind reminder to check the documentation or run your command with the --help flag: this usually may have the answer you are looking for
https://fmriprep.org/en/stable/usage.html#options-for-performing-only-a-subset-of-the-workflow
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