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mrtools:talairach [2011/03/29 06:40]
justin
mrtools:talairach [2011/03/29 06:41] (current)
justin
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   - When you're done, hit '​OK.'​ This automatically saves the rotation matrix that has been calculated based on the anchor points. The rotation matrix is saved in the .mat file that exists for every base anatomy. As the inplane anatomies and functional scans are aligned to this volume, the correct rotation matrix will be inherited at each step.   - When you're done, hit '​OK.'​ This automatically saves the rotation matrix that has been calculated based on the anchor points. The rotation matrix is saved in the .mat file that exists for every base anatomy. As the inplane anatomies and functional scans are aligned to this volume, the correct rotation matrix will be inherited at each step.
   - If you need to adjust your Talairach points at a later date, follow steps 1-7. Then, under the Talairach file menu, choose '​Export Talairach.'​ This will allow you to correct the transformation for any files that have been created based on the volume you have changed.   - If you need to adjust your Talairach points at a later date, follow steps 1-7. Then, under the Talairach file menu, choose '​Export Talairach.'​ This will allow you to correct the transformation for any files that have been created based on the volume you have changed.
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 ===== How the chosen points are used by mrLoadRet ===== ===== How the chosen points are used by mrLoadRet =====
  
-==We keep everything in the base structure, and we don't change the NIFTI headers, e.g., we do not re-set sform code to 3, we do not actually rotate the volume, and we do not change the s-form. Rather, we leave the sform code as 1, and save talXform to the base structure to be used for viewing or aligning.==+We keep everything in the base structure, and we don't change the NIFTI headers, e.g., we do not re-set sform code to 3, we do not actually rotate the volume, and we do not change the s-form. Rather, we leave the sform code as 1, and save talXform to the base structure to be used for viewing or aligning.
  
 See [[talequation|here]] for details of how talXform is computed, from points chosen by the user. See [[talequation|here]] for details of how talXform is computed, from points chosen by the user.