Hi all,
I've attempted to collect diffusion data with the CMRR sequence at our
Prisma, and got aliasing in the image (very apparent at higher b value).
Snapshot here:
https://dl.dropboxusercontent.com/u/3889124/b2500-MB3.tiff
Any suggestions on what the issue(s) could be?
I see the same when I lo
Hello,
I work in Specs Lab in Pompeu Fabra University as a Phd student.
I'm building an app for connectome visualisation and brain activity
simulation called BrainX3. The first version use Hagmann dataset based on
998 nodes and ~14.000 bidirectional connections.
For the new version I would like to
Hi all,
Would anyone be able to explain a bit more about the phase-encoding
directions LR and RL for the (preprocessed) REST1 session data from 500
subjects +MEG2? I understand that LR is left to right and RL is right to
left.
I'm wondering, are these meant to be somehow combined, or is only one
What CIFTI data are you trying to get into matlab?
Peace,
Matt.
From: hcp-users-boun...@humanconnectome.org
on behalf of David Dalmazzo
Sent: Monday, November 23, 2015 11:18 AM
To: hcp-users@humanconnectome.org
Subject: [HCP-Users] Trying to read HCP_S500_R
Usually you concatenate them temporally after demeaning (and perhaps variance
normalizing).
Peace,
Matt.
From: hcp-users-boun...@humanconnectome.org
on behalf of Joelle Zimmermann
Sent: Monday, November 23, 2015 11:33 AM
To: hcp-users@humanconnectome.org
S
#3 on https://wiki.humanconnectome.org/display/PublicData/HCP+Users+FAQ may
be of help.
Best,
Jenn
Jennifer Elam, Ph.D.
Outreach Coordinator, Human Connectome Project
Washington University School of Medicine
Department of Anatomy and Neurobiology, Box 8108
660 South Euclid Avenue
St. Louis
Hi Matt,
This file is HCP_S500_R468_MIGPd4500ROW.dconn.nii (33GB). But right now it
is working with the last updated version of fieldtrip.
Thanks for the support anyway
David
On Mon, Nov 23, 2015 at 7:14 PM, Glasser, Matthew
wrote:
> What CIFTI data are you trying to get into matlab?
>
>
> Peac
Hi Jennifer and Matt,
Thanks for your help. I have a few clarification questions below:
Does it matter in which order I concatenate the LR and the RL .nii's? My
ultimate goal is to create a functional connectivity matrix from the time
series.
#3 in the link you sent describes that there are 4 runs
Hi Jennifer,
I previously posted a question to the mailing list, and wanted to check
with you as you may have a bit more of an insiders scoop.
I was wondering whether tractography has been performed on the diffusion
data for the end of creating structural connectivity matrices for
individual subj
Hi, I'm a PhD student just getting started on a project that involves
analyzing some data from the 500 subjects release and wanted to know if
anyone has had any experience using the *-cifti-convert -from-nifti *operations
to make cifti files. Ultimately, the goal is to compare test-retest
variabili
Hi Joelle and all,
HCP does have running bedpostX on the diffusion data for HCP Subjects on our to
do list, but this data has not been released yet. We are hoping to have this
available to users by late winter/early spring 2016 after we release 7T data.
Best,
Jenn
Jennifer Elam, Ph.D.
O
The -cift-convert command is only files that are organized the way cifti is
- the data in question has to have already been in cifti space before using
the command will do anything for you. The nifti files written and accepted
by the command are "fake" nifti files, they only superficially resemble
Yes, I have, like so:
wb_command -cifti-convert -from-nifti ${NiftiIn} ${CiftiTemplate} ${CiftiOut}
-reset-scalars
But not in the context you describe. I was using randomise to generate group
permuted t-maps and then bring them back to cifti before doing TFCE on the
surface. (Now I use PALM
To get a dconn loaded in matlab, you of course need to have a large amount
of available memory. Freezing is what I would expect if you don't have
enough memory, and start using a lot of swap space (some ways of loading
might initially load it as double precision, and need twice the memory).
As yo
Hi Kevin,
It's been more than two years and I am wondering if there has been any
updates for downloading the HCP data via command line?
Thanks,
Cherry
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It doesn't matter what order you concatenate the data in, but I would not
recommend only analyzing the data of one phase encoding direction.
Peace,
Matt.
From:
mailto:hcp-users-boun...@humanconnectome.org>>
on behalf of Joelle Zimmermann
mailto:joelle.t.zimmerm...@gmail.com>>
Date: Monday, N
What are your settings on all the parameters on the Sequence:Special tab?
--
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
Department of Psychiatry, Box 813
Excite pulse duration: 2560 us
Refocus pulse duration: 5120 us
Single band images: off
MB LeakBlock Kernel: off
MB RF phase scramble: off
Time-shifted MB RF: off
SENSE1 coil combine: ON
Log physiology to file: off
Invert RO/PE polarity: off
Online multi-band recon: Online
FFT scale factor: 1.00
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