how do you know they are not in the same orientation? What are you using to check? On Fri, 26 Jun 2009, sameer kumar wrote:
Yes, I used the dicom to run recon-all. I converted the results back to native space, using mri_convert -rl orig/001.mgz XX.mgz XX_native.mgz
the images in the native space are not in the same orientation as 001.mgz, which i got from the dicoms.