Do that for all your masks. Probtrackx has no way of telling which values to ignore and which to consider in your image file, so by default it ignores zeros. If the background is not set to zero, it will not be ignored!
Saad
On 15 Nov 2012, at 13:39, David Soto wrote:
> thanks Saad, i guess what you suggest is the same
> as binarizing the masks eg fslmaths leftthal -bin leftthalbin
>
> and surely I need to do that also for the cortical masks?
>
> cheers
>
>
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
|