Subcortical coordinates in wb_view

[Connor Peck]

I'm using wb_view for a project investigating subcortical brain activations.  When I select a grayordinate within an activation cluster, the Information box appears with the selected anatomical XYZ coordinates following the scene I'm viewing (Screenshot_1 attached).  

Is there a good way to determine the subcortical brain region activated using these XYZ coordinates?  When I scroll to the top of the Information box, I see "Voxel XYZ (x, y, z)" and those coordinates are different from the ones below (Screenshot_2 attached) - are these MNI coordinates?  

I apologize if this topic has already been covered and appreciate any feedback!

Connor Peck

[Glasser, Matthew]

I you loaded a volume or CIFTI label file with the structures you are interested in, the information window would tell you.

Matt.

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[Harwell, John]

Hi Connor,

 

The IJK triplets (circled in one of your images) are “voxels indices” in the volume (subcortical) data.  Within the CIFTI or NIFTI file, there is a transformation that maps voxel IJK indices to/from coordinate XYZ values.  When an identification operation is performed in Workbench, the XYZ  coordinate is mapped to a voxel IJK index for each file that contains volumetric data (CIFTI and NIFTI files).  This link may be helpful: https://www.slicer.org/wiki/Coordinate_systems

 

If the data is in MNI space, then the XYZ is an MNI coordinate.

 

John Harwell

 

From: Connor Peck <four...@gmail.com>
Reply-To: "hcp-...@humanconnectome.org" <hcp-...@humanconnectome.org>
Date: Thursday, April 8, 2021 at 7:50 AM
To: HCP-Users <hcp-...@humanconnectome.org>
Subject: [hcp-users] Subcortical coordinates in wb_view

 

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[Connor Peck]

Thanks for the prompt replies, very helpful!

Connor Peck