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Thank you Stam for the reply! But I still have a doubt in using this method:- Using the map that I obtain by using the procedure suggested by you, will I be getting lengths of individual fibers? I mean what if there are more than 1 fiber that reach voxel A in the target ROI that start from different voxels in the seed ROI, in this case the value in the voxel A will be sum/combination of the expected lengths of these fibers right? If the waytotal value is for example 389087, is there a way to obtain length of these individual 389087 fibers? Thanks and regards, Madhura On Thu, Jun 5, 2014 at 2:31 AM, Stamatios Sotiropoulos < [log in to unmask]> wrote: > Hi Madhura > > You can obtain a map that in each voxel A gives the expected length of > paths that reach A, starting from the seed. In order to do that run > probtrackx twice, with and without the option –pd. Then divide the > respective fdt_paths_pd/fdt_paths. > > Hope this helps > Stam > > > > On 4 Jun 2014, at 21:57, Madhura Baxi <[log in to unmask]> wrote: > > Hi FSL, > > I wish to calculate fiber density between two ROIs. I have run > probtrackx and obtained the fdt_paths. In order to calculate fiber density > I need :- > 1. Total number of fibers/tracks - which I can get using waytotal. > 2. Size of ROIs - which is known > 3. Length of each fiber - I don't know how to get this from the probtrackx > results. > Is there a way to calculate this? Could you please guide me on how to > proceed on this ? > I would greatly appreciate your help on this! > > Thanks and regards, > Madhura > > >