 |
 |
Hi, That is correct. You may also want to watch out for swapped dimensions (including running in opposite direction). For example, I believe Freesurfer surfaces requires dimension swap. You can apply the dimension swap or a change in coordinates to the surface using run_mesh_utils --doMeshReg -m mesh.vtk -o out.vtk -f xfm.mat where xfm.mat is a 4x4 linear transformation matrix (same format as for flirt). The --inverse option will invert the matrix prior to transformation. Cheers, Brian > Hi, > > What coordinates are you using? > I believe (Brian can correct me if I'm wrong) that FIRST > vtk meshes use mm coordinates formed by multiplying > the voxel coordinate by the size of the voxel in mm. > If this is different from what you are using then that > would most likely be the problem. > > All the best, > Mark > > > On 16 Oct 2009, at 14:40, John wrote: > >> Hi, >> >> I've produced some .vtk meshes using ITKsnap and I'd like to view >> them in >> FSLview. My vtk meshes were created in native space in vtk, and my >> underlying nifti image is in native format too. When I load my >> ITKsnap, vtk >> mesh into the 3D fslview it appears displaced? Can anyone help me >> out here, >> where am I going wrong? >> >> Many thanks >> John >> > >