Hi Mohamad,

Nope, this isn't correct I'm afraid, because there's no guarantee that the tracts overlap between subjects, even if the brains happen to be all in the same space.

However, you can use fslstats to compute the average FA within the tract for each individual subject (that is, doing it separately for each subject, using a for-loop). These values can then be assembled into a table and used in statistical software.

All the best,

Anderson

On 21 November 2014 at 16:10, M. alshikho <[log in to unmask]> wrote:

Dear FSL Community,
I have two groups of subjects 5_15 year old. I did TBSS analysis and right now I want to study the tracts.
I am curious about the age range in this study because to the best of my knowledge the atlases included in FSL are designed for adults .
In order to do that I designed a template from the best images that I have then I used this template in TBSS stream.

Now I want to study the corticospinal tract for example:
Is it correct if I averaged the binarized masks for this tracts (derived from Tracula) for all the subjects then I included this averaged mask in the following command line:
fslmeants -i all_FA_skeletonized.nii.gz -m <My averaged mask> -o fA_CST.txt

Thanks for your support.
Mohamad