DSI Studio CLI not generating connectivity outputs for ROI-based tracking

[Usitha Uduwakaarachchi]

I wanted to use seed_count (or tract_count) proportional to the volume of each ROI. I generated tract files for each ROI separately, and now I need to compute connectivity metrics for the entire segmented region.

I tried using the command shown below, but it does not generate any connectivity output files. Instead, it reports that connectivity and connectivity_type are not used or not recognized.

Could someone please explain what might be causing this and how to fix it? I have attached two screenshots: one showing the command I used and the other showing the corresponding output.

[Frank Yeh]

Sorry for the delayed reply.

The code loaded multiple tracts all at once, and this cannot output matrix for each of it. My guess is that you want a matrix for each tract. The solution is to write a bash script with a 'for' loop to call DSI Studio command multiple times.

Best regards

Frank

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