Automated dwi QC, both raw and pipeline-agnostic processed?

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I was curious what sort of automated dwi QC pipelines are available? I’m aware that there are several tool-dependent (eddyQC) and preproc-pipeline-dependent (dmriprep-viewer) tools, but was curious if there has been development on either ones that focus on raw data or ones that are more pipeline-flexible.

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Hi @ajschadler,

You can use the classifier described here: An analysis-ready and quality controlled resource for pediatric brain white-matter research | Scientific Data

It predicts whether or not a DWI image will pass expert quality control ratings based on automated image quality metrics. The most informative metrics was called average neighbor correlation (described here: Differential Tractography as a Track-Based Biomarker for Neuronal Injury - PMC).

Best,
Steven

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Ah yes, I was wondering if there was an implementation of Yeh et al. 2019’s QC metrics outside qsiprep. Thank you for bringing it to my attention!

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No problem! I think that the classifier uses both raw and preprocessed image quality, so it might require QSIPrep, I would have to confirm that.

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The classifier in that paper used only outputs of qsiprep (including Yeh’s NDC) for QC, and not raw images.

We have also begun some work to incorporate some DWI-specific metrics into mriqc - for raw data - but that’s at a rather preliminary stage.

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Yes, I should have clarified: All of the metrics are prepared by QSIPrep, but the metrics relate to both the raw and preprocessed images (see the table here: https://www.nature.com/articles/s41597-022-01695-7/tables/2)

Best,
Steven

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There is also DTIPrep which operates on raw data, but I would think that is outdated and no longer maintaned.

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Hi @ajschadler ,

Here is one tool that we’ve been developping for quite some time. It works with raw data and also on all our flows. See here: SCIL tools
It may fit your needs.

Best,
Arnaud

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Thank you so much!

Would you also happen to know if there are any python implementations of the QC metrics mentioned in Yeh 2019?

I am aware that qsiprep has an implementation using DSI studio.

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nevermind, found your implementation

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Don’t hesitate, if you have any issues.
There are a couple of new features ready in the coming weeks.

Arnaud

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Would you happen to have a link to your dmriqc ISMRM poster?

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Here it is theaud-etal-ismrm22.pdf

Have a good day
Arnaud