Inquiry About Fiber Tracking and Analysis Between Multiple ROIs

[Abby Tang]

Dear Developer of DSI Studio,

Thank you for developing such a powerful and user-friendly tool for diffusion MRI analysis. I have a question regarding fiber tracking and analysis between multiple regions of interest (ROIs).

I have two seed regions and two ROIs. If I want to calculate the number of streamlines or the average FA value for fibers passing between each pair of these four regions (i.e., all pairwise combinations), should I:

1. Combine these four regions into a single atlas and run the tracking, or

2. Use the following code for each pair of regions separately?
   dsi_studio --action=trk \ --source=subject.fib.gz \ --seed=wholeBrain.nii.gz \ --roi=regionA.nii.gz \ --roi2=regionB.nii.gz \ --output=streamlines_AB.tt.gz
   
   After generating the streamlines.tt.gz file for a specific pair, how can I output the number of streamlines or the FA value for that bundle? Would the following command work?
   dsi_studio --action=ana --source=streamlines.tt.gz --export=count

   If not, could you please advise on the correct approach?

   Thank you for your time and support!

   Sincerely,
   Abby

[Frank Yeh]

at --action=trk add --export=stat
if using --action=ana, it is the same, but the source should be the .fib.gz file, and use --tract to specify tt.gz

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