Inquiry about Automating volume extraction across a large set of T1-Weighted MRI scans

[Zubina Zafar]

Hi Frank,

I’m working with a dataset of ~200 T1-weighted MRI scans and was hoping to extract region-based volume statistics (using an atlas in MNI space) in DSI Studio.

At the moment, it seems like this needs to be done manually for each scan through the GUI. I was wondering if there’s a way to batch or loop this process,  to automate volume extraction across a large set of T1w images?

If there’s an existing workflow or recommended approach for this, I’d really appreciate any guidance.

Thanks so much for your help!

[Frank Yeh]

The GUI also support batch processing using command history: e.g. wk1 videos at practicum.labsolver.org
Another option is to use the command line with --action=ana --source=some_t1w.nii.gz and adding other options

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