Hi Govinda, Thanks, Matt. That file is in the structural preprocessed package, if you don't already have it for the subject you are working on.
Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387<tel:314-362-9387> e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> ________________________________ From: hcp-users-boun...@humanconnectome.org <hcp-users-boun...@humanconnectome.org> on behalf of Glasser, Matthew <glass...@wustl.edu> Sent: Sunday, March 19, 2017 11:27:22 AM To: Govinda Surampudi; hcp-users Subject: Re: [HCP-Users] reference surface file for probtrackx2 The appropriate image to use is: ${StudyFolder}/${Subject}/T1w/T1w_acpc_dc_restore_1.25.nii.gz. Peace, Matt. On 3/19/17, 10:53 AM, "hcp-users-boun...@humanconnectome.org on behalf of Govinda Surampudi" <hcp-users-boun...@humanconnectome.org on behalf of govinda.suramp...@research.iiit.ac.in> wrote: >Hi all, >I am running tractography on single subject bedpostX preprocessed data to >generate structural connectivity matrices of the brain. >I refered to https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FDT/UserGuide for >running the command. >It says "When using surfaces, the user must set the surface coordinate >convention and provide a surface reference volume." and " Use the browse >button to locate a reference image (e.g., subject1.bedpostX/struct.nii.gz >if seed space is structral space).". >However, I am not able to find a surface reference image in the single >subject bedpostX preprocessed data downloaded from connctomeDB. >Could you explain briefly what a surface reference file is and where >would I find one ? >Thanks a lot ! >Regards, >Govinda > >_______________________________________________ >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 _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
