Examples of good images in visual report of fMRI/MRIQc

Hi experts,

Both MRIQC and fMRIPrep generate great visual reports for quality check. However, these reports need visual examination, which is subjective and requires rich experience with imaging data. So I wonder is there any document showing how to assess these visual reports and better with examples of good ones. Any suggestion is welcome, thanks in advance!

Best,
Shengjie

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Hey!

You could also have a look at https://github.com/elizabethbeard/mriqception, which allows you to compare your MRIQC metrics to openly available metrics from larger cohorts. It´s still subjective, but gives you a better idea about your distribution / outliers.

Best,
Dominik

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Hi @Shengjie_Xu,

I am preparing for my first run through with #mriqc & #fmriprep so I am in an identical position. Thank you to @dominikkraft for the info.

A couple of months ago, I was able to find a similar thread for fMRIPrep (fMRIPrep Tutorial ), which led me to @Shotgunosine’s guide (https://github.com/nimh-mbdu/fmriprep_qa_guide ). Unsure about how helpful it is as I have not got that far yet but maybe someone else has experience!

Nick

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Hi @nbray005 and @dominikkraft, Thanks for your great info on how to do a visual assessment!

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There’s a very useful series of posts on practicalfmri.blogspot.com, such as:
https://practicalfmri.blogspot.com/2011/11/understanding-fmri-artifacts-good.html#more

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Hi @franklin,

Any update on a guide to QCing fmriprep’s outputs?

Thanks,

Dylan

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Hi @Shotgunosine

I believe @oesteban is working on this - perhaps may be able to give an update

Thank you,
Franklin

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Hi @jaetzel,

Sincerely sorry for my late reply. I find the posts you put here super excellent! Thanks again for your help!

Hi there, in addition to the above guides/tools etc, you may find VisualQC to be helpful for your task as well. Take a look at some examples for fMRI here.

If you have a rather advanced need e.g. to check artefacts along with alignment accuracy etc, I am happy to help you to customize it for your applications to suit your needs.

you might also find the tool listed here on niQC website helpful.

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