[HCP-Users] Where is nodif_brain for Diffusion? (FDT registration / PROBTRACKX)

Hi, I'm trying to use FSL FDT to do some probabilistic tractography. I have run bedpostx and am now trying to run registration within FDT. According to an error I'm getting from the FSL FDT gui, I'm meant to have a nodif_brain image in the bedpostx directory but this is not the case. I do have the

[HCP-Users] Probtrackx surface analysis

d, it asks for a “surface reference image” for Freesurfer. Which file is best used for this purpose? Cheers, Linden —————— Linden Parkes PhD Candidate Monash Clinical & Imaging Neuroscience (MCIN) School of Psychological Sciences Monash Biomedical Imaging Monash Univ

Re: [HCP-Users] Probtrackx surface analysis

are you wanting to track from? > > Peace, > > Matt. > > From: Linden Parkes > Date: Monday, July 7, 2014 at 3:49 AM > To: "hcp-users@humanconnectome.org" > Subject: [HCP-Users] Probtrackx surface analysis > > Hi HCP users, > > I’m trying to r

Re: [HCP-Users] Probtrackx surface analysis

m/attachment.php?attachid=342&group_id=454&forum_id=1955 > for the list, but refer to the main specification in > http://www.nitrc.org/forum/forum.php?thread_id=4380&forum_id=1955 for how > "unknown" works (it still must end in .nii). > > Tim > > > >

[HCP-Users] MNINonLinear ROIs

—— Linden Parkes PhD Candidate Monash Clinical & Imaging Neuroscience (MCIN) School of Psychological Sciences Monash Biomedical Imaging Monash University A: 770 Blackburn Rd, Clayton, 3168, Vic, Australia T: +61 3 9902 9807  |  0402 516 574 E: linden.par...@monash.edu W: www.med.monash.ed

Re: [HCP-Users] MNINonLinear ROIs

Ok cool. So then if I want to generate connectivity matrixes based on seed to target connectivity and then average that across subjects I’d be better served by using the Atlas_ variants? Cheers, Linden —— Linden Parkes PhD Candidate Monash Clinical & Imaging Neurosci

Re: [HCP-Users] MNINonLinear ROIs

es, that would allow the results to have corresponding indices across > subjects (like standard meshes do on the surface). > > Peace, > > Matt. > > From: Linden Parkes > Date: Monday, November 3, 2014 at 4:21 PM > To: Matt Glasser , "hcp-users@humanconn

Re: [HCP-Users] MNINonLinear ROIs

afterwards. Cheers, Linden —— Linden Parkes PhD Candidate Monash Clinical & Imaging Neuroscience (MCIN) School of Psychological Sciences Monash Biomedical Imaging Monash University A: 770 Blackburn Rd, Clayton, 3168, Vic, Australia T: +61 3 9902 9807  |  0402 516 574 E: linden