Re: [Freesurfer] Transformation of volume images

2023-11-25 Thread Douglas N. Greve
You can try CVS (mri_cvs_register). It will take a while to run (typically about 12 hours), but it will be much more accurate On 11/23/2023 4:23 AM, P Pieperhoff wrote: External Email - Use Caution Hi Douglas, thanks for your suggestion! However, the result is not very accurate. This

Re: [Freesurfer] Transformation of volume images

2023-11-22 Thread Douglas N. Greve
You can useĀ  something like mri_convert orig.mgz -at mri/talairach.m3z orig-in-mni305.mgz This is nonlinear. It takes you to the mni305 space. On 11/21/2023 11:45 AM, P Pieperhoff wrote: External Email - Use Caution Hi Yujing, thank you for your help! But I think, this is only the affi

Re: [Freesurfer] Transformation of volume images

2023-11-21 Thread P Pieperhoff
External Email - Use Caution Hi Yujing, thank you for your help! But I think, this is only the affine registration? Is it possible that I can use the same transformation, by which e.g. aseg.mgz-atlas is transformed into the native space of a given subject? The volume-dataset of the

Re: [Freesurfer] Transformation of volume images

2023-11-17 Thread Huang, Yujing
Hi Peter, Here is an example to convert from native space to MNI305 (fsaverage) in https://surfer.nmr.mgh.harvard.edu/fswiki/mri_vol2vol mri_vol2vol --mov orig.mgz --targ $FREESURFER_HOME/average/mni305.cor.mgz --xfm transforms/talairach.xfm --o orig-in-mni305.mgz In your