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PennLINC / xcp_d

Post-processing of fMRIPrep, NiBabies, and HCP outputs
https://xcp-d.readthedocs.io
BSD 3-Clause "New" or "Revised" License
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Brain radius automatic estimation #1292

Open cindyhfls opened 1 month ago

cindyhfls commented 1 month ago

I think using the brain mask gives a radius estimation slightly larger than what is used by people

I tried to calculate the radius using the formula provided and the brain mask from Freesurfer, and I got 61 mm for a BCP subject at 17 months and 76 mm for an HCP-D subject at 20 years. Both are higher than the 50 mm used as defaults for adults.

tsalo commented 1 month ago

Thank you for investigating this. What change would you recommend?

cindyhfls commented 1 month ago

I don't have a good sense, just making sure that people who rely on "auto" are aware of this and that they don't assume that the "auto" gives them a smaller radius than 50 mm. The effect on which frames to censor is probably minimal.

tsalo commented 1 month ago

We can add a bit to the documentation to that effect.