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Dear freesurfer experts,
I am trying to make mask for '1027 ctx-lh-rostralmiddlefrontal, 2027 ctx-rh-rostralmiddlefrontal ' on MNI standard image (MNI152_T1_2mm_brain.nii) (FreeSurferColorLUT https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI/FreeSurferColorLUT?action=fullsearch&context=180&value=linkto%3A%22FsTutorial/AnatomicalROI/FreeSurferColorLUT%22 ) I can get the mask of native participant's image after completing 'recon-all' (mri_binarize --i nor86_ahj_fs/mri/aparc+aseg.mgz --match 1027 --o nor86_ahj_dlpfc/nor86_ahj_rostalmiddlefrontal.nii.gz) But I now want to get the mask on MNI standard image, not native image. I wonder if you can help me.
Best regards, Sangho ᐧ
Your can run mni152reg --s subject This will create a file calledsubject/ mri/transforms/reg.mni152.2mm.lta Then use mri_label2vol to map the aparc+aseg.mgz into the mni152 space using the --aparc+aseg flag and specifying the mni brain as the --template and the reg.mni152.2mm.lta as the --reg
On 2/7/2020 5:34 AM, sang ho shin wrote:
External Email - Use Caution
Dear freesurfer experts,
I am trying to make mask for '1027ctx-lh-rostralmiddlefrontal, 2027ctx-rh-rostralmiddlefrontal ' on MNI standard image (MNI152_T1_2mm_brain.nii) (FreeSurferColorLUT https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI/FreeSurferColorLUT?action=fullsearch&context=180&value=linkto%3A%22FsTutorial/AnatomicalROI/FreeSurferColorLUT%22) I can get the mask of native participant's image after completing 'recon-all' (mri_binarize--inor86_ahj_fs/mri/aparc+aseg.mgz--match 1027--o nor86_ahj_dlpfc/nor86_ahj_rostalmiddlefrontal.nii.gz) But I now want to get the mask on MNI standard image, not native image. I wonder if you can help me.
Best regards, Sangho ᐧ
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sang ho shin