I seem to be having some difficulty in converting my flash images into FS format for processing. After using mri_convert my orig.mgz files become excessively bright compared to the original analyze file, thus creating poor autorecon1 output, etc. See the attached jpgs of before and after shots. Also, here's the command I'm using: mri_convert -TI 20 -te 4 -tr 9.7 -flip_angle 0.174532925199433 -ot mgz *subjectid*.img mri/orig/001.mgz Am I doing something wrong? Thanks.
-Derin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
