Hi Claude et al., 1) The atlas template flatmaps surfaces are available at https://github.com/Washington-University/Pipelines/tree/master/global/templates/standard_mesh_atlases 164k: colin.cerebral.L.flat.164k_fs_LR.surf.gii <https://github.com/Washington-University/Pipelines/blob/master/global/templates/standard_mesh_atlases/colin.cerebral.L.flat.164k_fs_LR.surf.gii>; colin.cerebral.R.flat.164k_fs_LR.surf.gii <https://github.com/Washington-University/Pipelines/blob/master/global/templates/standard_mesh_atlases/colin.cerebral.L.flat.164k_fs_LR.surf.gii> 32k: colin.cerebral.L.flat.32k_fs_LR.surf.gii <https://github.com/Washington-University/Pipelines/blob/master/global/templates/standard_mesh_atlases/colin.cerebral.L.flat.164k_fs_LR.surf.gii>; colin.cerebral.R.flat.32k_fs_LR.surf.gi <https://github.com/Washington-University/Pipelines/blob/master/global/templates/standard_mesh_atlases/colin.cerebral.L.flat.164k_fs_LR.surf.gii>i
2) 32k versions of the same flatmap surfaces are available (but named S900.L.flat.32k_fs_LR.surf.gii and S900.R.flat.32k_fs_LR.surf.gii) along with the group average sulc and other modalities are in the 900 Subjects Group Average dataset users can download from our BALSA database: https://balsa.wustl.edu/study/show/WG33 And also here: https://db.humanconnectome.org/data/projects/HCP_1200 <https://db.humanconnectome.org/data/projects/HCP_1200> Upon download, the zipped data unpacks to a folder named HCP_S900_GroupAvg_v1 3) Flatmaps and associated datasets for individual subjects are available via ConnectomeDB or Connectome-in-a-Box datasets: The 164k flat maps are in {SubjectID}/MNINonLinear and the 32k flat maps are in {SubjectID}/MNINonLinear/fsaverage_LR32k 4) Let us know if you need help finding other reference datasets. 5) My earlier response to Claude Bajada <[email protected]> failed to transmit. If someone knows a different email for Claude, please forward this email to him separately. David > On Jul 10, 2017, at 3:08 AM, Claude Bajada <[email protected]> wrote: > > Dear David, > > Thank you for your reply and apologies for the late response. It appears that > I did not receive the email and it was forwarded to me today by a colleague > of mine. > > I am assuming that I can find the atlas flatmap somewhere within the HCP site? > > Kind regards, > Claude >> >> >> -------- Forwarded Message -------- >> Subject: Re: [HCP-Users] Flat Maps >> Date: Fri, 7 Jul 2017 10:16:13 -0700 >> From: David Van Essen <[email protected]> >> To: Claude Bajada <[email protected]>, hcp-users >> <[email protected]> >> >> Claude et al., >> >> The HCP pipelines include a process of registering individual-subject >> data to an atlas flat map (originally derived from the human PALS >> atlas). This does not include a process for generating de novo flat maps. >> Other software (e.g., FreeSurfer and Caret) have methods for generating >> individual flat-maps. The Caret method is only semi-automated. >> >> David >> >>> On Jul 7, 2017, at 5:37 AM, Claude Bajada <[email protected]> wrote: >>> >>> Dear all, >>> >>> Are there any available scripts (preferably in matlab or python) to >>> generate flat maps? >>> >>> 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 >> _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
