Hi,
Probtrackx does not save sample streamlines separately, as these are not meaningful in general. (you can easily hack the code to do that though).
Instead of saving intermediate voxels, probtrackx saves a file called "fdt_paths" that tells you the likelihood that each voxel is an intermediate voxel.
You can also get the likelihood that a voxel is intermediate after an average distance d. This can be done using the option --pd, and dividing the result by that obtained without that option. Such a map gives you the average length of all streamlines that reach any intermediate voxel, which you can then threshold to get to the above mentioned likelihood.
Perhaps a combination of these two results may help?
Saad.
On 1 Sep 2010, at 18:16, Saeideh Bakhshi wrote:
> Dear FSL experts,
>
> I would like to use FDT in order to get a map of connectivities from a single voxel to all other voxels in a brain, but in that process I also would like to see the intermediate steps, by that I mean not only the final connectivity, but also the intermediate voxels that are visited on a path from the seed to any voxel in the brain. Is there a way that I can access that data?
>
> Bests,
> Saeideh
>
--
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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