Dear all, When converting from analyze format is there any way to get mri_convert to read in orientation information from the analyze header file? Thanks, Sasha
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Do you mean the orientation field? I thought Tosa had set it up to do this, but I could be wrong. If it does not now, then it would have to be reprogrammed which means that it probably won't happen. You can set the direction cosines on the command-line with -i{ijk}d. If you have another volume oriented in the same way, then you can get the direction cosines from it using mri_info or use the --in_like option
Sasha Wolosin wrote:
Dear all, When converting from analyze format is there any way to get mri_convert to read in orientation information from the analyze header file? Thanks, Sasha
Disclaimer: The materials in this e-mail are private and may contain Protected Health Information. Please note that e-mail is not necessarily confidential or secure. Your use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
yes, it is the orientation field I need to set. I found a lossless way to re-orient my data using another program before passing it to freesurfer, so I guess I can use that, but I would prefer to do it all in one step with freesurfer, is the -i{ijk}d method lossless? Thanks, Sasha
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Sasha Wolosin