Hello experts,
I'm trying to create a combined cortical and subcortical dlabel file to do
parcellated connectivity analysis. In particular, I want to combine the
newly released 180 regions cortical parcellation (Glasser 2016), with the
subcortical ROI's from the freesurfer/HCP pipeline.
I tried several commands including wb_command -cifti-create-label to create
a .dlabel file from the Atlas_ROIs.2.nii.gz file and wb_command
-cifti-merge-dense to merge left and right cortex dlabels and the
subcortical ones.
wb_command -cifti-create-label
subj/MNINonLinear/ROIs/Atlas_ROIs.2.dlabel.nii -volume
subj/MNINonLinear/ROIs/Atlas_ROIs.2.nii.gz
subj/MNINonLinear/ROIs/Atlas_ROIs.2.nii.gz
wb_command -cifti-merge-dense COLUMN all_labels.dlabel.nii -cifti
Q1-Q6_RelatedParcellation210.L.CorticalAreas_dil_Colors.32k_fs_LR.dlabel.nii
-cifti
Q1-Q6_RelatedParcellation210.R.CorticalAreas_dil_Colors.32k_fs_LR.dlabel.nii
-cifti subj/MNINonLinear/ROIs/Atlas_ROIs.2.dlabel.nii
However, this seems to incorrectly merge the cortical and subcortical ROI's
based on the 'key' value they have. When applying this dlabel to a
.dtseries file with wb_command -cifti-parcellate, I see this output from
wb_command file-information:
CIFTI Dim[0]: 226
CIFTI Dim[1]: 360
ALONG_ROW map type: SERIES
Start: 0.000
Step: 1.000
Units: Seconds
ALONG_COLUMN map type: PARCELS
Has Volume Data: true
Volume Dims: 91,109,91
CortexLeft: 32492 vertices
CortexRight: 32492 vertices
Parcel 1: R_V1_ROI
CortexRight: 783 vertices
Parcel 2: R_MST_ROI
CortexRight: 73 vertices
Parcel 3: R_V6_ROI
CortexRight: 123 vertices
Parcel 4: R_V2_ROI
CortexRight: 611 vertices
Parcel 5: R_V3_ROI
CortexRight: 400 vertices
Parcel 6: R_V4_ROI
CortexRight: 263 vertices
Parcel 7: R_V8_ROI
CortexRight: 67 vertices
Parcel 8: R_4_ROI
CortexRight: 772 vertices
8709 voxels
Parcel 9: R_3b_ROI
CortexRight: 540 vertices
Parcel 10: R_FEF_ROI
CortexRight: 179 vertices
1288 voxels
Parcel 11: R_PEF_ROI
CortexRight: 100 vertices
728 voxels
Parcel 12: R_55b_ROI
CortexRight: 101 vertices
1060 voxels
What is the recommended way to combine cortical and subcortical label files?
Thx,
-Maarten
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