Dear Sam,
You want to divide each node by the size of the seed volume. So, this would be option c .
Cheers,
Michiel
> On 17 Mar 2020, at 16:55, Samantha Baldi <[log in to unmask]> wrote:
>
> Dear Michiel,
>
> In the end, I opted for calculating the seed volume with fslstats -V, and use this as my normalisation factor. Thinking back to this, I now have a fundamental doubt, which is also probably very stupid but I thought I'd ask, just for peace of mind.
>
> I have a 250x250 connectivity matrix, where all 250 regions were used as seeds in the probtrackx2 command (so no target masks where set). I then have 250 values for seed volumes.
> Let's say I want to normalize the number of streamlines connecting seed 1 and seed 14 (i.e. values in the cell [14,1] and [1,14] of my matrix), and seed volumes are respectively: 5633 and 8351.
> What do I do now? Do I (a) take the sum of the volumes, (b) take the average of the volumes or (c) divide cell [14,1] by 8351 and cell [1,14] by 5633?
>
> Thanks in advance again for the help!
>
> Best,
> Sam
>
>
>
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