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Hi to apply the transformation to V1 you need to use vecreg. Cheers -------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford. OX3 9 DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve ---------------------- On 17 Nov 2008, at 10:20, Ale <[log in to unmask]> wrote: > Hi all, > > In addition to the dwi data, I acquired a high resolution T1 volume > (voxel size 0.5mm x 0.5mm x 1mm). This volume is very useful in > order to view tractography results in a detailed way. I follow this > method: I registered with flirt the B0 volume to the high resolution > T1, and then I applied the same transformation matrix to the > reconstructed fibre tract. This seemed to work.. After that I tried > to apply the same method to dti_FA and dti_V1 in order to obtain a > high resolution colormap. It seemed that with the dti_FA volume > there wasn't any problem, but it wasn't the same with dti_V1. In > fact, after the registration to T1 volume, when I visualized the > obtained high resolution colormap, what I saw was a good result but > with some strange black lines (see attached image)... I think that > this problem could arise from the 4D nature of dti_V1. Is it > correct? Is there a solution? > > All the best, > > > Dr. Alessio Moscato > Medical Physicist > Medical Physics Dep. > Niguarda Ca' Granda Hospital > Milan, Italy > > <HR_colormap.JPG>