Question about getting native z-stats

[So Nia]

Hi,

I am interested in getting the z-stat on native surfaces. If I understand correctly, these files « 100206/MNINonLinear/Results/tfMRI_EMOTION/tfMRI_EMOTION_hp200_s2_level2.feat/GrayordinatesStats/cope1.feat/zstat1.dtseries.nii" are z-stat on the 32k common geometry. Is there a way of getting the native ones ?

Thanks a lot,

Sonia

[Glasser, Matthew]

That would be a significant oversampling of the data, so we did not generate those.  You can always resample the data back if you need to with wb_command -cifti-resample.

 

Also, I would use the data in the main ${fMRIName} folder, not in all those subfolders.

 

Matt.

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[Tim Coalson]

While the 32k mesh has common vertex identities and neighbor relationships across subjects, the surfaces in the T1w/ folder are the subject's original brain shape (rigid ACPC with scanner distortion correction, but the native mesh surfaces are also in this rigid ACPC space, not scanner space), regardless of mesh.  Surface registration doesn't deform the individual's anatomy, unlike volume registration.

Cifti files don't store the surface coordinates (to reduce confusion since processing is done on midthickness, but displayed on inflated), so you can use the surface data as-is with T1w/ surfaces.  The subcortical data, though, uses nonlinear MNI registration, since that is how we approached cross-subject subcortical correspondence.

Why do you want it on native mesh?  Note that for -cifti-resample, you will first need to make a template cifti file based on the subject's native mesh.  Another option is -cifti-separate and -metric-resample.

Tim

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