Hi
You can create your mask using fslmaths fdt_paths -thr x -bin
It helps if you use specific priors in the tractography to get a clean tract (inclusion/exclusion masks)
then you can use fslstats to get mean FA within the mask.
saad
On 29 Sep 2011, at 05:08, Ruben Miranda wrote:
> Hi,
>
> we ran probtrackx to do tractography between one part of the corpus callosum and different regions of the cortex. We want to do a mask of fdtpaths to calculate, after, the mean FA of these voxels.
>
> Is it a correct approach?
> How can I do the mask (i'm not interesed in -thr because are not the intensity values what i need to do the mask, is the brightness the useful information i need to do the mask).
>
> thank you
>
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
|