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@miykael miykael commented Jul 7, 2016

I've created a small atlas library (from FreeSurfer, FSL and SPM12's AAL atlas), which allows to look up the segmentation name and if possible the probability value for all of those atlases.

The atlas script is rather simple. You give it a coordinate, a probability threshold (to only show probability segments above set threshold), if it should write the output to the screen and the name of the atlases you want to look up. Possible names are:

  • aal
  • freesurfer_desikan-killiany
  • freesurfer_destrieux
  • HarvardOxford
  • Juelich

or all, which goes through all atlases.

This PR also includes an example notebook, which just shows how you can use the atlas_reader. No input needed, except the MNI-coordinate you want to look up.

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miykael commented Jul 7, 2016

I've changed the notebook example. It works now with fancy cool sliders. Happy to have your feedback about that.

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