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nipreps / fmripost-aroma

Run ICA-AROMA on fMRIPrep derivatives
https://fmripost-aroma.readthedocs.io/
Apache License 2.0
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Support minimal derivatives from fMRIPrep #12

Open tsalo opened 9 months ago

tsalo commented 9 months ago

What would you like to see added in this software?

This came up in today's NiPreps roundup call. I initially assumed that the fMRIPost workflow would use standard-space derivatives from fMRIPrep. However, what would be better would be for the fMRIPost Apps to have workflows that apply transforms from the minimal fMRIPrep outputs.

Do you have any interest in helping implement the feature?

Yes

Additional information / screenshots

No response

tsalo commented 6 months ago

If we use minimal derivatives, then we also need access to the raw dataset as well, right?

effigies commented 6 months ago

Yes.

tsalo commented 6 months ago

Since derivatives datasets can also be self-contained datasets, I think providing just derivatives (assuming they were run with "full" mode) should be allowed as well. Not sure how well all of that would play with the BIDS execution spec though.

effigies commented 6 months ago

Yeah, that should be doable. Look for space-... And only look up the bits to recalculate it if needed.

tsalo commented 3 months ago

With minimal mode, there won't be a confounds timeseries file, so in that case:

  1. --dummy-scans needs to be required.
  2. Motion parameters need to be extracted from the motion correction transform file.