If you want to constrain using FA of 0.15, do this:
fslmaths <FA> -thr 0.15 -bin -sub 1 -mul -1 <stopmask>
And then use <stopmask> as a stopmask in probtrackx.
Peace,
Matt.
-----Original Message-----
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf
Of Saad Jbabdi
Sent: Tuesday, April 05, 2011 1:06 PM
To: [log in to unmask]
Subject: Re: [FSL] option: fa constrain tracts in probtrack
Hi - this option is the probabilistic version of an FA constraint. It will
stop tracts with some probability that is dependent on the partial volume
fraction of the fibre direction that has been selected at the last step.
Saad.
On 5 Apr 2011, at 15:57, Romain Quentin wrote:
> Hello,
> I want to constrain the FA when i launch probtrack at 0.15.
> I do not know what value is using the option "use anisotropy to constrain
tracking"?
> Does anyone know how this option works?
> Thanks
>
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
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