Re: [HCP-Users] Grayordinate data

[Glasser, Matthew]

The mapping of the CIFTI grayordinates to vertices and voxels is stored in the header, which you can view with wb_command -nifti-information <cifti> -print-xml.   If you are looking for a grid of ROIs on the surface and in the volume, I’m not sure how to do that.  I do know there are tools for making equally sized areas on surfaces (e.g. mris_make_face_parcellation).  You can use mris_convert to go between GIFTI and FreeSurfer formats if necessary, though FreeSurfer normally reads GIFTI files just fine too.  I’ve made a roughly equal area parcellation before by running kmeans clustering on the CIFTI coordinates. Peace, Matt. From: Mahshid Najafi <mhs...@gmail.com> Date: Tuesday, March 25, 2014 at 12:51 PM To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: [HCP-Users] Grayordinate data Hi, I have some problems in understanding the  rfMRI_REST2_RL_Atlas_hp2000_clean.dtseries.nii data. I used wb_command -cifti-convert -to-gifti-ext rfMRI_REST2_RL_Atlas_hp2000_clean.dtseries.nii rest_gifti to convert CIFTI to gifti and used  gifti toolbox to load data in the MATLAB. Q1: The size of data is (91282,1200). I know 1200 is the time dimension, and 91282 should be right and left hemisphere vertices + subcortical voxels, right? If so, how can I understand if each column is which vertex or voxel of the brain? i.e, I do not know in what order the data is saved  Q2. How can I define uniformly distanced ROIs on the grayordinate data, which includes specific number of vertices/voxels? Thanks very much, Mahshid _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org 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 HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users