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Hi - I suggest you look at the images output to answer that! You might also see if you can output the VTK format outputs from bet and betsurf, as that might be a more accurate way of getting the surfaces into FreeSurfer, if they can handle that? Cheers. On 26 Oct 2010, at 00:21, Alexander Hunold wrote: > Dear experts, > > I build up the three additional surfaces with betsurf in the bet command like: > > <bet T1_input_file Output –A2 T2_input_file> > > I got the surfaces as nifti-files. In the documentation it is said, that it are binary masks. > To convert the nifti-files to FreeSurfer surface-files I got following hint from Nick Schmansky: > > > use mri_binarize to set each brain voxel value to the same value (maybe bet does this), then use something >like: > > >mri_tesselate mybrainmask.nii.gz 127 mybrainmask.surf > > >where '127' happens to be voxel value used in the binarization. > > I assume the bet algorithm does binarization. Is that right? When yes, my question now is what or which value “happens” to the voxels in the bet algorithm? > > I appreciate any hint. > Thank you so much in advance. > > Best regards, > Alexander > --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve ---------------------------------------------------------------------------