Hello:
I am trying to create ROI's using the JHU white-matter tractography atlas, which would
then be used to study FA changes over a one-year period. I had two questions: first was
related to the validity of the method that I was thinking of employing. Basically I was
thinking of using the JHU-tracts-maxprob25 to select my tract of interest. I was then
going to mask the mean_FA_skeleton using this tract:
fslmaths myregion_mask -mas mean_FA_skeleton_mask final_mask
And then use the final_mask to run the randomise command. Would this be a valid way of
getting the mean FA in my tract of interest? Also, I was wondering if I should use the
maxprob25 to select my tract of interest, which I am assuming is the proportion (25%) of
people who showed the particular tract in that location? Or should I go lower than this to
account for inter-subject variation in gross WM fiber architecture? And if I did want to go
lower, say (5%), which image would I be using?
Thanks for the help!
-Ruchika.
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