That command should do what you intended, though it will give you two 32k x 91k files, not 32k x 32k. Another possibility for doing this (which can also get you to the single-hemisphere 29k x 29k cifti file by running it twice) is -cifti-restrict-dense-map, which is also far less painful to load the results into wb_view, as it remains a dconn file (data loaded on demand, not in advance, knows not to show it as 91k maps in a combobox).
I ran the exact command you quoted on the same file downloaded from ConnectomeDB, using workbench v1.1.1 linux64 (debian/ubuntu) as previously released on our website, and the resulting files I got look nothing like your capture (I am trying it again with v1.2.3 now, but it takes a while to run things on files this large - very little has changed in this command, so I expect the same result). Did you do anything after the -cifti-separate that you didn't mention? Which map(s) in the output file did you check? What version of workbench and OS did you run it on, and how much memory did the machine have? Tim On Mon, Mar 13, 2017 at 10:13 AM, Estrid Jakobsen <[email protected]> wrote: > Hi folks, > > I have a question regarding extracting the left and right hemispheres from > .dconn cifti files. I've tried using wb_command -cifti-separate on the > 820-subject group average dense connectome (see command below), but when I > then visualize a connectivity vector from the resulting 32k x 32k matrix, > the vertices appear to be scrambled (see attached image). I'm guessing this > might have something to do with the command not being intended for > separating symmetrical matrices and perhaps only extracting correctly along > one dimension...? > > Is there a way to extract the left and right 32k matrices from the dense > connectome, or would I have to go back and create them myself from the PCA > Eigenmaps? > > Thanks in advance! > > Estrid > > wb_command -cifti-separate HCP_S900_820_rfMRI_MSMAll_ > groupPCA_d4500ROW_zcorr.dconn.nii ROW -metric CORTEX_RIGHT > HCP_S900_820_rfMRI_MSMAll_groupPCA_d4500ROW_zcorr_RIGHT.func.gii -metric > CORTEX_LEFT HCP_S900_820_rfMRI_MSMAll_groupPCA_d4500ROW_zcorr_LEFT. > func.gii > > > **************** > Estrid Jakobsen > > Postdoctoral Fellow > Cognitive Neurosciences > Montreal Neurological Institute and Hospital, McGill University > > Max Planck Research Group Neuroanatomy and Connectivity > Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig > > _______________________________________________ > 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
