Dear Leslie,
this is the command I use to combine an atlas_mask with an
allbrain_skeletonised_mask
fslmaths mymask -mas uncinate mymask_uncinate
this is the commands I use to extract FA values:
fslstats -t all_FA_skeletonised -k mymask_uncinate -M
hope it helps
Angela
> I have a simple question!
>
> how does one extract average FA values from individual subject files (i
> assume I would get it from dti_FA.nii.gz). Also, can I choose specific
> areas to mask and extract and compare individual subject average FA
> values?
>
> THanks so much!
>