Potental contribution to MRIQC or new utility?

[ltetrel]

Hi all,

Recently I have been working on a BIDS app to automate anat and func QC and was thinking it could be usefull for the community as well.

Given fMRIprep output, it extract the mean frame-wise displacement, and compute anat and func dice coefficient between the appropriate masks.
You can check example output with QC status:

ccna-biomarkers/ccna_qc/blob/main/data/processed/qc_metrics.csv

Figures generated and descriptive stats:

ccna_qc/reports at main · ccna-biomarkers/ccna_qc

Maybe it fits to the scope of the niprep organization, or PR to MRIQC.

Let me know

[oesteban]

As it works on fMRIPrep’s outputs, it’d be great to PR against fMRIPrep actually. There’s been a lot of discussion about adding QC metrics to fMRIPrep and we wanted to incorporate them.

This is a +1 on my end

[ltetrel]

Referencing this thread since it had an impact on that project as well:

Output resolution of sMRIPrep and fMRIPrep

@ltetrel and @yohanchatelain have hit a common issue with fMRIPrep’s and sMRIPrep’s default outputs. Sometimes, minimal variations in the original image’s resolution would end up with slightly different NIfTI orientation prescriptions and matrix, making direct aggregation of results in some standardized space impossible. The default prescription replicates the resolution of the original image (T1w or BOLD) that is going to be resampled into standard space, and then samples the FoV of the target…