RECON ALL on HCP AABC release 1 data set
Sahil Bajaj
Dear HCP users,
I am planning to use the recently released HCP AABC Release 1 dataset. While reviewing the processed T1w data, it appears that FreeSurfer’s recon-all has been run only partially, as the expected stats directory is missing, even though most other recon-all outputs are present.
Could someone please clarify (a) whether the stats folder was intentionally excluded from HCP processing, and if so, (b) what additional FreeSurfer steps I should run locally to generate the complete set of recon-all outputs for these subjects?
I would greatly appreciate any guidance.
Best,
Sahil
Elam, Jennifer
Hi Sahil,
The Structural Preprocessed Extended package has the full FS outputs that you are looking for.
Best,
Jenn
________________________________________
Jennifer Elam, Ph.D.
Scientific Outreach, Human Connectome Project
Washington University School of Medicine
el...@wustl.edu
www.humanconnectome.org
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Sahil Bajaj
Sahil
Sahil Bajaj, PhD Assistant Professor Department of Cancer Systems Imaging Division of Diagnostic Imaging |
Elam, Jennifer
You need to toggle the “Recommended” column on the right to “All”.
Best,
Jenn
________________________________________
Jennifer Elam, Ph.D.
Scientific Outreach, Human Connectome Project
Washington University School of Medicine
el...@wustl.edu
www.humanconnectome.org
From:
Sahil Bajaj <sahil...@gmail.com>
Date: Tuesday, November 4, 2025 at 4:51 PM
To: hcp-...@humanconnectome.org <hcp-...@humanconnectome.org>
Subject: Re: [hcp-users] RECON ALL on HCP AABC release 1 data set
HI Jenn,
Thanks for your quick response. I am using the 2nd last from the following list and it doesn't seem to have full FS outputs. Could you please let me know where to find the "Extended" package?
Thanks,
Sahil
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Sahil Bajaj, PhD Assistant Professor Department of Cancer Systems Imaging Division of Diagnostic Imaging |
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Sahil Bajaj
Sahil