Stam may be able to answer this better than me. I think what you would do is to provide probtrackx the native to MNI (and MNI to native) warps and use the MNI space 32k white surfaces and subcortical ROIs. Note that diffusion data is in structural "native"
undistorted space space.
Peace,
The CIFTI standard space is in MNI space (subcortical voxels). If you use the surface ${StudyFolder}/${SubjectID}/MNINonLinear/fsaverage_LR32k/${SubjectID}.${Hemisphere}.midthickness.32k_fs_LR.surf.gii, then you will have surface coordinates in MNI space
as well.
As for the question about
The volume space that should be used to turn the indices into an XYZ
location is in the Volume XML element, which in cifti 1.0 is a child of the
Matrix element (ignore the "TransformedSpace" attribute, we don't use it or
set it to anything different depending on the space). The meaning of the
XYZ
Hello HCP teams,
Thank you for all the hard works you did. I have some questions about the
coordinate of CIFTI files.
I read the online material and it mentioned that there are node index (for
surface), voxel index (for volume), and an XYZ coordinate. My questions is
that what space the voxel ind
