Question About Choosing Output Space in fMRIPrep Scripts

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Hi everyone,

In the fMRIPrep script, regarding the --output-spaces option, should I use MNI152NLin2009cAsym or MNI152NLin6Asym? I have noticed that many tutorials use MNI152NLin2009cAsym, while a script provided by a fellow student uses MNI152NLin6Asym.

Since I plan to use AFNI for subsequent analysis, what criteria should I use to decide which output space to choose? What are the differences between these two templates?

Thank you for your help!

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Hi @ShuningW,

MNI152NLin6Asym is the FSL default and may be useful if using certain FSL tools (such as AROMA).

Many other softwares such as Nilearn use MNI152NLin2009cAsym as a default.

The two templates are similar but MNI152NLin2009cAsym is more recent. Read more here: https://nist.mni.mcgill.ca/atlases/

Best,
Steven

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I got it! Thank you so much Steven :grinning: