FYI, your message displayed kind of strangely, gmail decided to clip the entire message as if it were too long.
The easiest way to deal with the cifti index to vertex mapping is to use -cifti-separate to unpack it into single-hemisphere full-surface gifti files (which also can output ROIs of which vertices are used in the cifti file), and -cifti-create-dense-from-template to pack the data back into a cifti file. There is also -cifti-export-dense-mapping if you want the information needed to do it manually. A terminology note, surface data elements are not voxels, they are vertices. They are not rectangular prisms, nor are they laid out in a regular grid. Tim On Wed, Jun 14, 2017 at 4:39 AM, Bajada, Claude Julien < [email protected]> wrote: > Dear all, > > I am new to using HCP data and am trying to extract surface voxels. So far > I have extracted the voxels from the gifti file (eg data.vertices). The > problem with this method is that the callosal and midbrain voxels are > included. Hence when I generate scalar maps that correspond to these > vertices, they have an incorrect index (from anterior to the occipital > lobe) once I insert them in a cifti.cdata field. > > Can anyone help me identify the 'ignored' midline voxels? > > Regards, > Claude > > > ------------------------------------------------------------ > ------------------------------------ > ------------------------------------------------------------ > ------------------------------------ > Forschungszentrum Juelich GmbH > 52425 Juelich > Sitz der Gesellschaft: Juelich > Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498 > Vorsitzender des Aufsichtsrats: MinDir Dr. Karl Eugen Huthmacher > Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender), > Karsten Beneke (stellv. Vorsitzender), Prof. Dr.-Ing. Harald Bolt, > Prof. Dr. Sebastian M. Schmidt > ------------------------------------------------------------ > ------------------------------------ > ------------------------------------------------------------ > ------------------------------------ > > _______________________________________________ > HCP-Users mailing list > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
