StrainR values are 2x higher than StrainJ in general. As for acceptable
values, keep in mind things like areal distortion/StrainJ are Log2 of the
number. That means that +/-2 means 4 fold expansion or contraction. What is
acceptable might vary from application to application. In general,
Thanks Matt. and are acceptable ranges for values of those files less than 2
also?
Moataz
On Mon, May 27, 2019 at 5:47 AM +0100, "Glasser, Matthew"
mailto:glass...@wustl.edu>> wrote:
Hi Moataz,
I check the StrainJ (isotropic areal distortion) and StrainR (shape distortion)
and the overall
That file does exist in the structural package then.
Matt.
From: Jaime Caballero
Date: Monday, May 27, 2019 at 3:20 PM
To: "Glasser, Matthew"
Cc: "hcp-users@humanconnectome.org"
Subject: Re: [HCP-Users] Convert nifti-ROIs to cifti format (subcortical)
Sorry for the confusion.
Locally
Sorry for the confusion.
Locally acquired data wasn't processed using the HCP pipelines, it is in a
different resolution and it was processed in volume space, no problem there.
I want to use Choi's parcellation with HCP data. All the process I
described is mi workaround to adapt Choi files to
I thought you said you were using a locally collected sample you ran the HCP
Pipelines on?
Matt.
From: Jaime Caballero
Date: Monday, May 27, 2019 at 3:10 PM
To: "Glasser, Matthew"
Subject: Re: [HCP-Users] Convert nifti-ROIs to cifti format (subcortical)
Ok, thank you! I will try that.
I
To make the .dscalar.nii file, you seem to be on the right track. If the Choi
ROIs are properly in MNI space, hopefully you could simply use applywarp
--interp=nn -i -r
${StudyFolder}/${Subject}/MNINonLinear/ROIs/Atlas_ROIs.2.nii.gz -o
and then the wb_command
OK. Thanks!
Leah.
> On May 27, 2019, at 12:59 PM, Glasser, Matthew wrote:
>
> Yes.
>
> Matt.
>
> From: on behalf of Marta Moreno
>
> Date: Monday, May 27, 2019 at 11:15 AM
> To: HCP Users
> Subject: [HCP-Users] DeDriftAndResamplePipelineBatch.sh
>
> Dear Experts,
>
> If I run MR
The objective is to extract functional connectivity between cortical and
striatal ROIs, and ALFF and ReHo from both cortical and striatal ROIs.
Up to this point I have imported each subject's dtseries.nii file into
MATLAB, and also the previously defined ROIs in an HCP-compatible format.
For the
What do you plan to do with the file?
Matt.
From: Jaime Caballero
Date: Monday, May 27, 2019 at 12:08 PM
To: "Glasser, Matthew"
Cc: "hcp-users@humanconnectome.org"
Subject: Re: [HCP-Users] Convert nifti-ROIs to cifti format (subcortical)
A .dscalar.nii output, I think. Basically I want an
A .dscalar.nii output, I think. Basically I want an equivalent of the nifti
ROI, but in cifti: for each voxel/vertex, value 1 if inside the ROI, 0 if
outside. Would a dlabel file be better for this application?
El lun., 27 may. 2019 a las 19:03, Glasser, Matthew ()
escribió:
> Are you wanting a
Are you wanting a .dlabel.nii output or a .dscalar.nii output?
Matt.
From: on behalf of Jaime Caballero
Date: Monday, May 27, 2019 at 10:37 AM
To: "hcp-users@humanconnectome.org"
Subject: [HCP-Users] Convert nifti-ROIs to cifti format (subcortical)
Dear experts
In my center we are studying
Yes.
Matt.
From: on behalf of Marta Moreno
Date: Monday, May 27, 2019 at 11:15 AM
To: HCP Users
Subject: [HCP-Users] DeDriftAndResamplePipelineBatch.sh
Dear Experts,
If I run MR ICAFIX regressing motion parameters as part of the cleaning, do I
need to set
Dear Experts,
If I run MR ICAFIX regressing motion parameters as part of the cleaning, do I
need to set DeDriftAndResamplePipelineBatch.sh as MotionRegression=TRUE?
Thanks,
Leah.
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Dear experts
In my center we are studying cortico-striatal functional connectivity, and
cortical/striatal local measures (ALFF, ReHo) on a locally acquired sample.
For that we are using Choi's functional parcellation, distributed as a
volumetric NIFTI file, in MNI152 space. We want to validate
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