Volumetric template that is used for fmriprep's cifti output

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1

What is the volumetric template that is used for the cifti output from fmriprep for the subcortical structures?

For reference, this was my fmriprep command:

fmriprep_23.0.1.sif /input /out participant --participant_label sub-* -w /workdir --skip-bids-validation --use-aroma --cifti-output 91k -v -v --mem_mb 40000 --output-spaces MNI152NLin6Asym:res-2 anat --force-bbr --bids-filter-file /input/code/preprocessing/fmriprep/filter.json --nprocs 16 --omp-nthreads 8 --bids-database-dir /out/bids_db/

Thank you :slight_smile:

2

fMRIPrep CIFTI-2 outputs are always resampled with MNI152NLin6Asym. If you request 91k (default), it will be res-2 (2mm isotropic). If you request 170k, it will be res-1 (1mm isotropic).

3

thank you! is that independent of me having requested this --output-spaces MNI152NLin6Asym:res-2?

4

Yes, adding that, you’ll also get full volumetric time series.

5

sorry i meant the opposite – if i don’t add it (eg. in the case where i am not interested in the volumetric data), does it always use MNI152NLin6Asym for the cifti subcortical structures?

6

Yes.

extra characters to get discourse to let me post

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