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Cite this paper is using mri_deface: [[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2408762/|A Technique for the Deidentification of Structural Brain MR Images]] |
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| You will need a volume viewer to view the resulting defaced file. The freesurfer package includes the 'freeview' viewer, but there are many others capable of reading dicom and nifti volumes. | You will need a volume viewer to view the resulting defaced file. The freesurfer package includes the 'freeview' viewer, but there are many others capable of reading dicom and nifti volumes. [[http://www.mccauslandcenter.sc.edu/mricro/mricron/|MRIcron]] is a good option (use MRIcron, not MRIcro, because you will want nifti support). |
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Automated Defacing Tools
See also MBIRN page
Cite this paper is using mri_deface: A Technique for the Deidentification of Structural Brain MR Images
Note: A license file is no longer necessary to use these tools:
sample_T1_input.mgz - This is a sample input volume used in the example. Replace with your own input.
Use gunzip to decompress these downloads, ie.:
gunzip mri_deface-v1.22-Linux64.gz cp mri_deface-v1.22-Linux64.gz mri_deface chmod a+x mri_deface gunzip talairach_mixed_with_skull.gca.gz gunzip face.gca.gz
Then, example usage, using the example input volume:
./mri_deface sample_T1_input.mgz talairach_mixed_with_skull.gca face.gca sample_T1_input_defaced.mgz
For your own data, substitute the name of your T1-weighted input file, which can be a dicom or nifti:
./mri_deface my_T1.nii talairach_mixed_with_skull.gca face.gca my_T1_defaced.nii
You will need a volume viewer to view the resulting defaced file. The freesurfer package includes the 'freeview' viewer, but there are many others capable of reading dicom and nifti volumes. MRIcron is a good option (use MRIcron, not MRIcro, because you will want nifti support).
Sample input before and after defacing:
