External Email - Use Caution
Hello Team, I have a nifti file of dimension (256, 256, 156) but once I run the freesurfer recon-all the subregions mask "*aparc.DKTatlas+aseg.mgz*" has a dimension of (256,256,256) due to this I am unable to view the segmentation overlaid on the original image in any dicom viewer.
May I know why freesurfer changes the dimension of the original image and the mask ? Is there any solution for this?
Any help will be highly appreciated. Thank you.
Hi Padma,
Freesurfer outputs volumes in conformed anatomical space (volumes in 1x1x1mm, 256x256x256).
For information on how to convert volumes back to native anatomical space, see https://surfer.nmr.mgh.harvard.edu/fswiki/FsAnat-to-NativeAnat
Best,
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of priya padma Sent: Tuesday, November 15, 2022 9:49 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Original image and the mask file dimension mismatch
External Email - Use Caution Hello Team, I have a nifti file of dimension (256, 256, 156) but once I run the freesurfer recon-all the subregions mask "aparc.DKTatlas+aseg.mgz" has a dimension of (256,256,256) due to this I am unable to view the segmentation overlaid on the original image in any dicom viewer.
May I know why freesurfer changes the dimension of the original image and the mask ? Is there any solution for this?
Any help will be highly appreciated. Thank you.
-- Best Regards Padma Priya AI Developer [Image removed by sender.] PhenoMx, Inc. priya@phenomx.aimailto:priya@phenomx.ai | (+82)10-5405-2685
freesurfer@nmr.mgh.harvard.edu
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Huang, Yujing -
priya padma