Thank you all for your support. Regards, Govinda
> On 19-Mar-2017, at 10:25 PM, Elam, Jennifer <[email protected]> wrote: > > Sorry, it's the diffusion preprocessed package you need. > > 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 > [email protected] > www.humanconnectome.org > > From: Elam, Jennifer > Sent: Sunday, March 19, 2017 11:49:06 AM > To: Glasser, Matthew; Govinda Surampudi; hcp-users > Subject: Re: [HCP-Users] reference surface file for probtrackx2 > > 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 > [email protected] > www.humanconnectome.org > > From: [email protected] > <[email protected]> on behalf of Glasser, Matthew > <[email protected]> > 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, "[email protected] on behalf of > Govinda Surampudi" <[email protected] on behalf of > [email protected]> 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 > >[email protected] > >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 > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
