Hello all -
I am working on running DTIFIT on human connectome project diffusion data, but
when I run the code using the gradnonlin option, the b0 image doesn't look
correct.
On a typical b0 image, the ventricles should be bright. The output on all of
my subjects gives me dark ventricles.
Hi Matt,
So to get the diffusion data into the standard space, which files are relevant
under the MNINonLinear folder? Sorry for the confusion.
Derek
From: Glasser, Matthew [mailto:glass...@wusm.wustl.edu]
Sent: Monday, May 18, 2015 3:15 PM
To: Archer,Derek B; hcp-users@humanconnectome.org
,
Derek
From: Glasser, Matthew [mailto:glass...@wusm.wustl.edu]
Sent: Monday, May 18, 2015 1:57 PM
To: Archer,Derek B; hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Minimal Preprocessing Pipelines
Probably need to specify your probtrackx2 command lines, but both rigid
alignment to MNI space
Sent: Friday, February 27, 2015 10:45 AM
To: Archer,Derek B
Cc: hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Processing Diffusion MRI Data
Hi Derek
With the default burn-in period (b=1000 iterations), on a CPU cluster you
should expect ~10 hours per subject. We are using a GPU cluster, so
Hi Stam,
Thank you for the fast response!
Derek
From: Stamatios Sotiropoulos [mailto:stamatios.sotiropou...@ndcn.ox.ac.uk]
Sent: Friday, February 27, 2015 10:46 AM
To: Archer,Derek B
Cc: hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Processing Diffusion MRI Data
Hi Derek
: Glasser, Matthew [mailto:glass...@wusm.wustl.edu]
Sent: Tuesday, February 17, 2015 12:55 PM
To: Archer,Derek B; Stamatios Sotiropoulos; hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Processing Diffusion MRI Data
Are you running the command on ${StudyFolder}/${Subject}/T1w/Diffusion
Hello,
I am trying to analyze the preprocessed diffusion data, however, I am having
some difficulties. Is there some documentation that I could look at that
outlines how to use bedpostx, FLIRT/FNIRT, DTIFIT and probtrackx with this data?
From what I've found in the archives, I need to do the
