External Email - Use Caution Thanks for your response Sir
I did that using mri_convert for the orig.mgz file and brainstem segmented file. (mri_convert orig.mgz --apply_transform transforms/talairach.xfm -o orig.talairach.mgz). but the image doesn't seem like to be aligned. How can I confirm that the image is ACPC aligned or not and how is the transformation matrix in transforms.xfm file is evaluated. Thanks in advance Sadia On Sat 23 Feb, 2019, 12:38 AM Bruce Fischl <fis...@nmr.mgh.harvard.edu wrote: > Hi Sadia > > we don't align to AC-PC, but we do compute a talairach transformation in > $SUBJECTS_DIR/$subjects/mri/transforms/talairach.xfm that should do so. > You > can apply it using mri_convert or mri_vol2vol. > > cheers > Bruce > > On > Fri, 22 Feb 2019, Sadia Sheikh wrote: > > > > > External Email - Use Caution > > > > Hello Freesurfer experts > > Freesurfer preprocessed data by(recon-all) are ACPC aligned? > > If not how can I align my files to ACPC? I read the documents but I am > still very confused about the > > alignment and coordinate system in freesurfer. > > > > Thanks in advance > > > > Regards > > Sadia > > Research Student > > > >_______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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