Hi matt, One other thing. I understand that if you take the grayordinate locations of the vertices and apply the appropriate spatial transform, one gets the vertex locations in subject space, along with labels, so you have corresponding cortical points across subjects, with the same vertex having the same label across subjects.
How does this work for the subcortical voxels? If you apply the same transform to the set of grayordinate voxel locations, you don't wind up with a consistent set across subjects. The points in subject space won't always be in different voxels. They can't be, because the volume of the subcortical structures varies across subjects. Is it possible to get a set of consistently labelled points in subcortical structures, or can this only be done at the level of subcortical structures (20 or so, rather than 30K, per subject)? -dh ________________________________ From: [email protected] <[email protected]> on behalf of Glasser, Matthew <[email protected]> Sent: Sunday, May 31, 2015 11:51:41 AM To: Chao Liu; [email protected] Subject: Re: [HCP-Users] Resting fMRI Cortex Vertices Indices Yes they are and they have correspondence across subjects. That is the point of being on standard meshes and a standard atlas set of subcortical voxels in the 2mm CIFTI grayordinates space. The reason that not all surface vertices are included is because the medial wall is not cortical grey matter. Peace, Matt. From: Chao Liu <[email protected]<mailto:[email protected]>> Date: Sunday, May 31, 2015 at 1:46 PM To: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: [HCP-Users] Resting fMRI Cortex Vertices Indices Dear Experts, In resting state fMRI dtseries file, by using wb_command -file-information xxx.dtseries.nii, we could see: CortexLeft: 29696 out of 32492 vertices CortexRight: 29716 out of 32492 vertices ... And by using wb_command -nifti-information xxx.dtseries.nii -print-xml we could see: <BrainModel IndexOffset="0" IndexCount="29696" BrainStructure="CIFTI_STRUCTURE_CORTEX_LEFT" ModelType="CIFTI_MODEL_TYPE_SURFACE" SurfaceNumberOfVertices="32492"> <VertexIndices>0 1 2 3 4 5 6 8 9 10 11 12 13 14 15 16 17 18 19 20 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 ... which tells us which 29696 vertices (CortexLeft) out of 32492 are included. And for CortexRight, it tells which 29716 vertices out of 32492 are included. My question is are all the vertices indices in CortexLeft (29696) and CortexRight (29716) the SAME for all the subjects? Thank you very much for your time! Cheers, Chao _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
