Dr Gizem AltanDr Gizem Altan
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  • Research
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    • Science Snapshot [PhD]
    • Software for fMRI Research
    • My FreeSurfer Notebook
      • How to get ROIs from Kastner FreeSurfer Atlas
      • FreeSurfer terminal commands
    • BOLD Responses to Looming and Receding Visual Motion
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My FreeSurfer Notebook

Pial Surface
Pial Surface
White Surface
White Surface
Subcortical Segmentation
Subcortical Segmentation
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  • Install FreeSurfer
  • Get ROIs from Probabilistic Atlas
  • FreeSurfer Commands
I found this video on Youtube to be very helpful besides the freesurfer wiki pages.
How to get ROIs from Kastner FreeSurfer Atlas?
Surface based → Volume based

Probabilistic maps of visual topography in human cortex: An atlas from Sabine Kastner's Lab

!! FreeSurfer v5.3 is needed !!
How-to-do code list for freesurfer via mac terminal
Gizem Altan
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