Fmriprep ica-aroma output always in MNI152 2mm

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Dear NeuroStars,

I was wondering, why preprocessed EPI images using ica-aroma always lying on 2mm MNI template. I tried several --template-resampling-grid options, but the output EPI was always realigned to 2mm space. (maybe ica-aroma always aligned to 2mm as default?)

Here is the commandline of my fmriprep (1.1.2) runs:

$ singularity run -B <main_dir> <main_dir/fmriprep-1.1.2.simg> <main_dir/bids_dir> <main_dir/output_XX>
participant --participant-label 01 --fs-license-file <$HOME/license.txt> --nthreads 16 --bold2t1w-dof 6 --use-aroma -w <main_dir/work_XX> --write-graph --template MNI152NLin2009cAsym --output-space template --template-resampling-grid XX

where XX was 1mm, 2mm and native for three different runs.

Attached is ica-aroma output with MNI152_2mm_brain.nii.gz.

Thanks in advance!

ica-aroma_mni2mm
ica-aroma_mni2mm.png6400×3038 649 KB

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Hi @sheyma, at this moment, ICA-AROMA only works on the Linear MNI152 2mm template. That is the reason why fMRIPrep disregards any --template-resampling-grid option you pass on for the AROMA denoised outputs.

We will implement any additional space as ICA-AROMA starts supporting them.

Cheers,
Oscar

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Hi @oesteban,

Thanks for the reply!

Ok, I see the reasoning. Good luck with ICA-AROMA implementation.

Best,
Şeyma