> Hi, Bianca,
> You can do this inside fsl. You can use your difference Controls to
> Patients volumes as masks for your FA, MD etc maps. See fslstats command
> and use the option -k in order to apply your volume of interest to the FA
> map for example in order to obtain a mean value for that specific diffusion
> parameter (e.g. FA). You can also ask for the volume quantification in
> fslstats, please, see fslstats syntax.
> Hope it helps,
> Mihaela