Did you remove the sform and qform at the beginning of the process (i.e. before FreeSurfer)?
Peace, Matt. On 3/28/14, 9:04 AM, "Righart, Ruthger" <righ...@lrz.tu-muenchen.de> wrote: >Dear Caret experts, > >I am working on myelin mapping but encounter errors in surface-volume >registration, as previously reported in this list. > >I have removed oblique sforms from the t1.nii and t2.nii files >(sform_code='0' and qform='1', the new headers have equal matrices for s >and q). >I have the impression that the first error occurs after the command: > >applywarp --interp=spline -i OrigT2w.nii.gz -r T1w.nii.gz >--premat=T2w2T1wbb.mat -o T2w2T1w_translated.nii.gz > >Please find attached an fslview for the translated and non-translated >images. The translated image is not centered and from the non-translated >images a piece of the left hemisphere is cut-off (I wondered if this has >anything to do with the coordinate space, Scanner Anat(1) or Aligned >Anat(2) in the headers?). I would welcome your suggestions to solve this >problem. I am working with Caret v5.65 on a Linux machine. Thank you >very much in advance! > >Ruthger_______________________________________________ >caret-users mailing list >caret-users@brainvis.wustl.edu >http://brainvis.wustl.edu/mailman/listinfo/caret-users _______________________________________________ caret-users mailing list caret-users@brainvis.wustl.edu http://brainvis.wustl.edu/mailman/listinfo/caret-users
