We store only one copy of the surface-based data in
${StudyFolder}/${Subject}/MNINonLinear. All of this data is computed in the
native space however. The only thing that is different between the
${StudyFolder}/${Subject}/MNINonLinear and ${StudyFolder}/${Subject}/T1w
datasets are the surface meshes themselves, which are either in the native
volume space ${StudyFolder}/${Subject}/T1w or MNI space
${StudyFolder}/${Subject}/MNINonLinear.
Peace,
Matt.
From:
<[email protected]<mailto:[email protected]>>
on behalf of "Harms, Michael" <[email protected]<mailto:[email protected]>>
Date: Wednesday, April 18, 2018 at 9:12 PM
To: Jacob Miller <[email protected]<mailto:[email protected]>>,
"[email protected]<mailto:[email protected]>"
<[email protected]<mailto:[email protected]>>
Subject: Re: [HCP-Users] Native space surface curvature available?
Hi,
The entirety of the original FS output is available at
${subject}/T1w/${subject}, which you can obtain via the “Structural Extended”
packages, or as part of “Connectome-in-a-Box” (no longer taking new orders, but
perhaps you already have one) or available on S3.
Cheers,
-MH
--
Michael Harms, Ph.D.
-----------------------------------------------------------
Associate Professor of Psychiatry
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO 63110 Email:
[email protected]<mailto:[email protected]>
From:
<[email protected]<mailto:[email protected]>>
on behalf of Jacob Miller
<[email protected]<mailto:[email protected]>>
Date: Wednesday, April 18, 2018 at 9:04 PM
To: "[email protected]<mailto:[email protected]>"
<[email protected]<mailto:[email protected]>>
Subject: [HCP-Users] Native space surface curvature available?
Hi all,
I am seeking to perform an anatomical analysis on the HCP dataset which
requires the surfaces and cortical folding (gyri/sulci curvature) for each
individual subject, in native space. This information is available in a typical
FreeSurfer recon-all analysis. However, in the HCP data (namely, in
$subject/T1w/Native/) the surfaces do not appear to have curvature information.
Was this information released in the data from the modified HCP FreeSurfer
pipelines, and I'm missing where this may be stored? Or, are the gyru/sulci
curvature for each subject not available? If so, is there a way to obtain these
curvatures without running an entire recon-all pipeline on each native T1 scan?
Please let me know if I may be mistaken! I've only just begun trying to use
this great dataset.
Best,
Jacob
--
Jacob Miller
Graduate Student, D'Esposito Lab
Helen Wills Neuroscience Institute (HWNI)
University of California, Berkeley
https://despolab.berkeley.edu/
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