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Dear Nasia, To do this, you can use the --network option in Probtrackx2. This will generate a 4x4 connectivity matrix stored in a text file. By normalising each row of that matrix by its total sum (or by the values stored in the waytotal file), you will also account for differences in ROI size. Hope this helps, cheers, Matteo > On 13 Jan 2019, at 04:01, Athanasia Metoki <[log in to unmask]> wrote: > > Dear HCP experts, > > I intend to run tractography (probtrackx2) using ROIs A, B, C, and D. I will run tractographies between all possible pairs A-B, A-C, A-D, B-C, B-D, and C-D. > My ROIs are different sizes. > > I am interested in a tractography measurement which is independent of the size of the seed/target ROI, such as an absolute connectivity probability between two ROIs. ROIs A,B,C, and D are different sizes and I would like to know whether the connectivity probability between A-B is larger compared to the connectivity probability A-C etc. > > Any suggestions on how to do this? > > Best, > Nasia Metoki > > ######################################################################## > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1