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Hi - If you open seeds_to_target in fslview, you will find that there is a distribution of values inside the seed mask. In your case, it appears that all seed voxels had at least one streamline that reached the target, which can happen, but all these seed voxels may have different probabilities of reaching the target.CheersSaadOn 20 Apr 2013, at 01:57, Ran Xu <[log in to unmask]> wrote:Hi Saad,I am sorry I missed something. Now, the number of nonzero elements in "seeds_to_target.nii" is the same with the one in the whole seed mask. And I tried all subjects and got the exact same number. It's a little weird to me, because I know from ROI1 to ROI2 not all seeds can succeed. I use this following command, the targetmasks, the waypoint and stop options are using the same target mask. Does that make sense?"probtrackx2 -s %s -m %s --seed=%s --targetmasks=%s --waypoints=%s --stop=%s --dir=%s --onewaycondition --os2t", sname, mname, seed_name1, tar_name1,tar_name1,tar_name1,result_path1
Thank you so much!RanOn Fri, Apr 19, 2013 at 4:14 PM, Saad Jbabdi <[log in to unmask]> wrote:Hi - this is odd. Are you certain that you are calculating the number of non-zero voxels correctly?CheersSaadOn 19 Apr 2013, at 21:24, Ran Xu <[log in to unmask]> wrote:Dear FSL experts,I used probtrackx2 command to do tracking and I only had one seed mask and one target mask. The obtained "seeds_to_target.nii" file, should be a part of the whole seed mask. But when I overlap this "seeds_to_target.nii" with the whole seed mask, I found the number of nonzero elements in "seeds_to_target.nii" is more than the one in the whole seed mask. The overlap can also be seen in MRIcron. I am confused. Could you help me to figure this out?Thanks.Ran--Saad JbabdiUniversity of Oxford, FMRIB CentreJR Hospital, Headington, OX3 9DU, UK(+44)1865-222466 (fax 717)
--Saad JbabdiUniversity of Oxford, FMRIB CentreJR Hospital, Headington, OX3 9DU, UK(+44)1865-222466 (fax 717)