I will start by apologizing if my question is trivial. I am doing my first tractography and I am really not sure of what means my results.
So, for my tractography, I have a seed area and a target template. I mean I want to find (8000) fibers leaving from one areas (in my case a small part of the cerebellum) and finishing in one of the areas of my template (simple template with large areas…visual left and right; temporal left and right…).
So here is my tckgen function
tckgen -algorithm iFOD2 -mask WM.mif -seed_image SeedImage -include TargetTemplate -seeds 0 -select 8000 SphericalDeconv.mif output.tck
After combining my targetTemplate and my seed_area(CombineSeedTemplate.nii), I want to extract a connectome matrix.
tck2connectome output.tck CombineSeedTemplate.nii outputConnectome.cvs
Here is my pb: I am happy my matrix have just one column with number (the column of the seed) the est of the matrix is 0… but what I dont understand is why the sum of this column is not 8000! I am usually between 2000 and 3000 (sometimes less) depending of my subject or/and seeds (different part of the cerebellum).
Am I doing something wrong? or did I misunderstand the function tck2connectome?
Thanks a lot for your helps!