FYI: I think there may have been an issue with how the file was created, but that is being discussed off list. We’ll post on the list once that is sorted out.
Peace, Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of "Harms, Michael" <mha...@wustl.edu<mailto:mha...@wustl.edu>> Date: Monday, July 17, 2017 at 5:04 PM To: David Hartman <dhartman1...@gmail.com<mailto:dhartman1...@gmail.com>> Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] mapping HCP data into 7 functional networks (using Thomas Yeo parcellation) Hi, Have you loaded the maps in wb_view and just clicked around to get familiar with them? cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mha...@wustl.edu<mailto:mha...@wustl.edu> From: David Hartman <dhartman1...@gmail.com<mailto:dhartman1...@gmail.com>> Date: Monday, July 17, 2017 at 4:51 PM To: Michael Harms <mha...@wustl.edu<mailto:mha...@wustl.edu>> Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] mapping HCP data into 7 functional networks (using Thomas Yeo parcellation) Since calling in MATLAB: “ciftiopen('RSN-networks.32k_fs_LR.dlabel.nii','workbench\bin_windows64\wb_command.exe')” gives me a matrix with 4 columns whose range is beyond the 17 or 7 corresponding to their functional grouping, I have resorted to using wb-command hoping to get right labelling. Question: Which wb-command should I use to read the labels and see for the 32k mesh which networks the nodes belong to (ie. 1 to 7)? I tried using wb_command -cifti-parcellate rfMRI_REST1_LR_Atlas_MSMAll.dtseries.nii RSN-networks.32k_fs_LR.dlabel.nii COLUMN out.ptseries.nii, but out.ptseries.nii returns a matrix 8×1200. But I am hoping for something 32k×1 for the correct labelling, where each row is a number between 1 and 7 or 17 corresponding to the group the node belongs to. Hope it is not too confusing. Thank you, David Hartman On Mon, Jul 17, 2017 at 3:09 PM, Harms, Michael <mha...@wustl.edu<mailto:mha...@wustl.edu>> wrote: Hi, There are actually 4 different maps in that file. If you load it into Workbench, the name associated with each map tells you what each map is. cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave.Tel: 314-747-6173<tel:(314)%20747-6173> St. Louis, MO 63110Email: mha...@wustl.edu<mailto:mha...@wustl.edu> From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of David Hartman <dhartman1...@gmail.com<mailto:dhartman1...@gmail.com>> Date: Monday, July 17, 2017 at 12:21 PM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] mapping HCP data into 7 functional networks (using Thomas Yeo parcellation) Hi, Background: Regarding the labels file, “RSN-networks.32k_fs_LR.dlabel.nii” which I thought should contain the 7 and 17 network parcellation, this file has a matrix of size 64984×4. What do the numbers in the 4 columns represent (ie. 1st column has a max of 44 and 4th column a max of 26). I was expecting a single column that took values from 1 to 17 or 1 to 7 mapping each vertex to its grouping in the functional networks. Question: How should I understand these 4 columns and their connection to functional network parcellation? Thank you, David Hartman On Fri, Jul 14, 2017 at 2:27 PM, David Hartman <dhartman1...@gmail.com<mailto:dhartman1...@gmail.com>> wrote: Hi, Background: Regarding the parcellation of the cortex into functional networks (“The organization of the human cerebral cortex estimated by intrinsic functional connectivity,” Yeo et al.) Yeo breaks up the cortex into 7 networks. However, his cortical data has 163842 vertices, while the HCP data only has 59412 vertices. Question: I am looking to map the HCP data into these 7 networks, but I don’t see a way to get the data into the same format as Yeo’s data (ie. 163842 vertices) to use his mapping. 1. Does anyone know of a way to convert HCP data into the same format as Yeo’s data to use his mapping or a direct way to map the HCP data to 7 networks? Any help would be much appreciated. Thank you, David Hartman _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto: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. ________________________________ 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<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
