Is your FreeSurfer set up correctly? I just checked the current git master
version of FreeSurferHighResWhite and there was no syntax issue or missing “
Peace,
Matt.
From: Darko Komnenić >
Date: Thursday, February 22, 2018 at 4:49 AM
To: Matt
Yes we probably should do what Keith suggests by default.
Peace,
Matt.
From:
>
on behalf of "Cook, Philip"
>
Date: Thursday, February 22,
I would have a look at this file for the task design matrix:
${StudyFolder}/${Subject}/MNINonLinear/Results/${fMRIName}/${AnalysisName}.feat/design.mat
Not sure if it is released or if you have to run the task analysis pipeline to
generate it.
Peace,
Matt.
From:
On the technical end, cifti dtseries are arranges such that a row is a
timecourse - you will need to select columns rather than rows. wb_command
-cifti-merge can do this.
On the math side, I don't know the details needed to sync the EV files with
the dtseries (whether the 0s from the EVs match
Okay, but be aware that the volume registration isn't perfect even for
subcortical structures. We go to some trouble to deal with the
non-overlapping edges without mixing data across individually-identified
subcortical structures when we put subcortical data into CIFTI. I don't
know how bad the
Dear HCP-Users,
I am pretty new to task fMRI data and I would like to check how to use the
files in the EVs folder to extract information from the .dtseries.nii file
for the MOTOR dataset. As an example, I chose subject 100307 with the LR
phase and I was able to build this table from the files in
The files without any “registration suffix” came first temporally and were
generated using “MSMSulc” registration. When the “MSMAll” registration was
added later, we then added “MSMAll” as part of the file name.
Cheers,
-MH
--
Michael Harms, Ph.D.
Dear Professors,
I am pretty new to task fMRI data and I would like to check how to use the
files in the EVs folder to extract information from the .dtseries.nii file for
the MOTOR dataset. As an example I chose subject 100307 with the LR phase and I
was able to build this table from the files
Thanks everyone, this will be much faster to implement!
On Feb 22, 2018, at 10:14 AM, Keith Jamison
> wrote:
This is not an official HCP answer, but I always delete the following after
functional preprocessing:
Hi Jenn,
I have a question about the scores from NIH toolbox on the domains of negative
affect, psychological well-being, social relationships, and stress and
self-efficacy.
I see that the scores available for download are all unadjusted; I do not see a
column for any adjusted scores on these
This is not an official HCP answer, but I always delete the following after
functional preprocessing:
$subj/rfMRI_REST1_LR/MotionMatrices/MAT*.nii.gz
$subj/rfMRI_REST1_LR/OneStepResampling/prevols/
$subj/rfMRI_REST1_LR/OneStepResampling/postvols/
MotionMatrices/*.nii.gz alone accounts for nearly
Thanks
On il-Ħamis, 22 ta Fra, 2018 12:41 , Glasser, Matthew wrote:
They are in ${StudyFolder}/${Subject}/MNINonLinear/xfms
Peace,
Matt.
From: > on behalf of Claude
Bajada
They are in ${StudyFolder}/${Subject}/MNINonLinear/xfms
Peace,
Matt.
From:
>
on behalf of Claude Bajada
>
Date: Thursday, February 22, 2018 at 2:50 AM
To:
Hi Matt,
yes, I am using bash.
On Wed, Feb 21, 2018 at 9:56 PM, Glasser, Matthew
wrote:
> That is the shell command to source a script. Are you using bash as your
> shell?
>
> Peace,
>
> Matt.
>
> From: on behalf of Darko Komnenić
>
Thanks Tim and Ely,
This is helpful.
Tim, I think I prefer your second suggestion (using the standard cifti
MNINonLinear group definition). I need a one to one correspondence
between every point in the thalamus across individuals and to a template
thalamus. The reason (and perhaps I need to
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