Volumetric template that is used for fmriprep's cifti output

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:

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).

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

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

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?


extra characters to get discourse to let me post

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