There are a variety of subcortical parcellations out there including these:
https://surfer.nmr.mgh.harvard.edu/fswiki/StriatumParcellation_Choi2012 http://www.freesurfer.net/fswiki/CerebellumParcellation_Buckner2011 These were made with a very different approach than the HCP’s multi-modal parcellation v1.0. It would be possible to apply the approach we used to make the cortical parcellation to the subcortical parcellation, but this will be a big undertaking. Peace, Matt. From: <[email protected]<mailto:[email protected]>> on behalf of Timothy Coalson <[email protected]<mailto:[email protected]>> Date: Tuesday, May 16, 2017 at 4:22 AM To: Guy Hwang <[email protected]<mailto:[email protected]>> Cc: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: Re: [HCP-Users] Parcellation of subcortical areas The HCP-MMP1.0 does not contain subcortical parcellations. This would be future work. Others may be able to point you to some cerebellum/subcortical parcellations from other works. As for "borders": subcortical areas, which are represented as volume-based structures, cannot have their boundaries represented as border files, because border files are only for surface-based structures (currently, just cerebral cortex). The most similar concept to borders for volume structures (as opposed to the sheetlike cortex) would be surfaces (the boundary of a 3D object is a 2D surface). This makes sense, as the cortical surfaces we use are derived from segmenting the cortex out of the volume. Tim On Mon, May 15, 2017 at 11:48 AM, Guy Hwang <[email protected]<mailto:[email protected]>> wrote: Hello, I have been using wb_command -cifti-parcellate to extract time series using Q1-Q6_RelatedParcellation210.L.CorticalAreas_dil_Colors.32k_fs_LR.dlabel.nii (and R) For subcortical areas, I see the border files, but not the dlabel.nii files on https://balsa.wustl.edu/study/show/RVVG. Can you help me find these? Or is there a way to extract timeseries from subcortical areas using other commands? Thank you, Guy [https://balsa.wustl.edu/scene/image/4mlX]<https://balsa.wustl.edu/study/show/RVVG> A Multi-modal Parcellation of Human Cerebral Cortex<https://balsa.wustl.edu/study/show/RVVG> balsa.wustl.edu<http://balsa.wustl.edu> SPECIES: Human DESCRIPTION: Understanding the amazingly complex human cerebral cortex requires a map (or parcellation) of its major subdivisions, known as cortical areas. _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ 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
