Parcellating hcp cifti data

Hi All,

Hope someone might be able to shed some light!

I have processed some HCP data using the HCP pipelines. I have my fix cleaned data in cifti format:

concat_Atlas_hp2000_clean.dtseries.nii

I wish to get to use the desikan-killiany parcellation and get mean time series for each of the rois:

wb_command -cifti-parcellate concat_Atlas_hp2000_clean.dtseries.nii $subject_id.aparc.32k_fs_LR.dlabel.nii
COLUMN dk.ptseries.nii

This seems to work and gives me a 70*num_timepoints matrix

The issue I have is that a few of the ROIS have a value of 0 for all time points. For two this corresponds to the corpus callosum which makes sense, but also the right lateral occipital.

When I look at the data in there is no signal drop out that might explain this

Does anyone have any ideas as to what might be going on?

Thanks!

Rob

Hi Rob,
Could I ask you how you obtained the subject-specific desikan-killiany parcellation with a .dlabel.nii extension?