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ME-ICA / open-multi-echo-data

Open multi-echo datasets
https://me-ica.github.io/open-multi-echo-data/
MIT License
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Finalize fMRIPrep settings #28

Open tsalo opened 10 months ago

tsalo commented 10 months ago

I'm planning to use version 23.1.5 (once it's released), since it has some nice CIFTI improvements.

Here are my planned settings:

--output-spaces func:res-native T1w:res-native MNI152NLin6Asym:res-2
--output-layout bids
--level full
--me-t2s-fit-method curvefit
--me-output-echos
--project-goodvoxels
--cifti-output
--slice-time-ref 0  # this should simplify the analysis for task data
--return-all-components
--random-seed 0

Is it worth it to include --use-aroma? Might be nice to have AROMA outputs to compare to tedana.

handwerkerd commented 10 months ago

I think AROMA would mostly be useful if we could use the same ICA mixing matrix for AROMA & tedana. If they use different ICAs, then it would be hard to do useful comparisions.

tsalo commented 10 months ago

It seems possible to use the same mixing matrix for both. It's not something anyone's done yet AFAIK.

tsalo commented 10 months ago

Actually I just remembered that AROMA was removed from fMRIPrep. I'll have to wait until fmripost-aroma is working, but that might be a useful additional derivative set once it's up and running.