Groups

HCP-Users

1–30 of 2212

Welcome to the HCP-Users Google group, which is the primary forum for discussions of topics relevant to the Human Connectome Project (HCP) and Connectome Coordination Facility (CCF). Topics covered include the HCP-Young Adult (HCP-YA) original dataset of 1200 healthy adults ages 22-35, the Lifespan HCP projects (HCP-Development, ages 5-21, and HCP-Aging, ages 35-100+), the Connectomes Related to Human Disease projects (CRHD, see humanconnectome.org), all processing and analysis methods/pipelines developed by HCP including the HCP Pipelines, HCP-Style MRI acquisition, T1w/T2w myelin mapping, sICA+FIX, temporal ICA, MSM surface registration, CIFTI and grayordinates, the fs_LR standard surface space, the HCP’s multi-modal parcellation, Connectome Workbench visualization and analysis software (wb_view and wb_command), and the Brain Analysis Library of Spatial maps and Atlases (BALSA) database (balsa.wustl.edu).

The QuNex container is best discussed at https://forum.qunex.yale.edu/. FreeSurfer and FSL non-HCP specific topics are best discussed on those mailing lists (https://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferSupport , https://fsl.fmrib.ox.ac.uk/fsl/docs/#/support). The PALM software is best discussed on the FSL mailing list.

Post here or by sending messages to hcp-users@humanconnectome.org

0 selected

Hari Mellacheruvu, Jennifer Elam2

Sep 4

Accessing HCP-YA 2025 data from cluster: Aspera

Hi Hari, See https://groups.google.com/a/humanconnectome.org/g/hcp-users/c/jOSvL4QOCJw/m/823ZghxCAQAJ

unread,

Accessing HCP-YA 2025 data from cluster: Aspera

Hi Hari, See https://groups.google.com/a/humanconnectome.org/g/hcp-users/c/jOSvL4QOCJw/m/823ZghxCAQAJ

Sep 4

Aly Kotb, … Elam, Jennifer6

Sep 4

BALSA 2025 Release

Hi Andraz, We are working on a plan for implementing one or more alternatives to the Aspera GUI, but

unread,

BALSA 2025 Release

Hi Andraz, We are working on a plan for implementing one or more alternatives to the Aspera GUI, but

Sep 4

Ioanna Ladopoulou, Glasser, Matthew2

Sep 3

Freesurfer recon-all sphere surface registration error

Rerunning the HCP-YA data surface generation is not recommended. We have an explicit correction for

unread,

Freesurfer recon-all sphere surface registration error

Rerunning the HCP-YA data surface generation is not recommended. We have an explicit correction for

Sep 3

Estephan Moana, … Glasser, Matthew7

Sep 3

Recommended amount of resting BOLD for brain network estability

Thanks for the detailed advice Matt. Follow-up questions: I should have mentioned that we plan to

unread,

Recommended amount of resting BOLD for brain network estability

Thanks for the detailed advice Matt. Follow-up questions: I should have mentioned that we plan to

Sep 3

Yael Coldham, … Harms, Michael44

Sep 3

dMRI preprocessing

That should have worked, per our testing so far here on our end, but if you don't want to figure

unread,

dMRI preprocessing

That should have worked, per our testing so far here on our end, but if you don't want to figure

Sep 3

Bokyeong Jeong, … Glasser, Matthew7

Sep 3

Regarding spatial smoothing of 7T movie-watching tfMRI data

The one I gave has major subcortical structures in it. A multi-modal parcellation of non-neocortical

unread,

Regarding spatial smoothing of 7T movie-watching tfMRI data

The one I gave has major subcortical structures in it. A multi-modal parcellation of non-neocortical

Sep 3

Namrata Tamang, Tim Coalson3

Sep 3

resampling of subcortical ROI

Dear Tim, Thank you for you prompt reply! Namrata On Wednesday, September 3, 2025 at 1:47:54 PM UTC+9

unread,

resampling of subcortical ROI

Dear Tim, Thank you for you prompt reply! Namrata On Wednesday, September 3, 2025 at 1:47:54 PM UTC+9

Sep 3

Aly Kotb, … Tim Coalson8

Sep 3

Paper: Learning Cortical Parcellations Using Graph Neural Networks

wb_command -cifti-parcellate puts the list of vertices (and/or voxels) each parcel used into the XML

unread,

Paper: Learning Cortical Parcellations Using Graph Neural Networks

wb_command -cifti-parcellate puts the list of vertices (and/or voxels) each parcel used into the XML

Sep 3

Ranesh Mopuru, Glasser, Matthew2

Sep 2

Gradient Deviation Correction for CSD in MRtrix3 using HCP 7T Data

I would ask the Mrtrix3 developers about this. Matt. From: Ranesh Mopuru <tur3...@temple.edu>

unread,

Gradient Deviation Correction for CSD in MRtrix3 using HCP 7T Data

I would ask the Mrtrix3 developers about this. Matt. From: Ranesh Mopuru <tur3...@temple.edu>

Sep 2

Fabio Strappazzon, Elam, Jennifer3

Sep 2

ConnectomeDB closure and MEG data

Ok, thanks! Il giorno martedì 2 settembre 2025 alle 16:02:03 UTC+2 Elam, Jennifer ha scritto: Hi

unread,

ConnectomeDB closure and MEG data

Ok, thanks! Il giorno martedì 2 settembre 2025 alle 16:02:03 UTC+2 Elam, Jennifer ha scritto: Hi

Sep 2

Alpay Ozcan (ialp), Elam, Jennifer2

Sep 2

old e-mails attached to a user name

Hi Alpay, If you know your password, you can login to BALSA and update your email in your profile by

unread,

old e-mails attached to a user name

Hi Alpay, If you know your password, you can login to BALSA and update your email in your profile by

Sep 2

Harsh Pandey, … Namrata Tamang14

Aug 31

Assistance Needed in Analyzing Resting-State fMRI CIFTI Format

Hi Shruti, Thank you for your prompt reply. It is very helpful. I'll check out the PALM

unread,

Assistance Needed in Analyzing Resting-State fMRI CIFTI Format

Hi Shruti, Thank you for your prompt reply. It is very helpful. I'll check out the PALM

Aug 31

Shruti Kinger, Tim Coalson6

Aug 29

visualize*.gii on a surface with a colorbar that scales in proportion to the color intensity

Thank you again. I have created the flat surface using the wb_command -surface-generate-inflated.

unread,

visualize*.gii on a surface with a colorbar that scales in proportion to the color intensity

Thank you again. I have created the flat surface using the wb_command -surface-generate-inflated.

Aug 29

Alexa Kondas, Elam, Jennifer2

Aug 29

HCP DCAM NDA Data Release

Hi Alexa, The phenotypic and behavioral variables that are released on NDA for DCAM are listed in the

unread,

HCP DCAM NDA Data Release

Hi Alexa, The phenotypic and behavioral variables that are released on NDA for DCAM are listed in the

Aug 29

Zack Guo, … Elam, Jennifer4

Aug 29

Unrelated subjects

Thank you both Tim and Jenn for the very helpful and clear explanations. I just have two quick follow

unread,

Unrelated subjects

Thank you both Tim and Jenn for the very helpful and clear explanations. I just have two quick follow

Aug 29

Hannah Alves Hagy, … Toshihiko Aso@Gmail10

Aug 28

Using NIH Cognitive data

Thank you for the clear and helpful information!!! I'll work on it. Best regards, Toshihiko ASO,

unread,

Using NIH Cognitive data

Thank you for the clear and helpful information!!! I'll work on it. Best regards, Toshihiko ASO,

Aug 28

Prabhjot Kaur, … Glasser, Matthew11

Aug 27

You also need to open some surface files (.surf.gii) to view things on surface models. Matt. From:

unread,

You also need to open some surface files (.surf.gii) to view things on surface models. Matt. From:

Aug 27

Matthieu Vanhoutte, Glasser, Matthew6

Aug 27

fMRIVolume pipeline: steps after minimal preprocessing

There is no way to project a group volume atlas to the surface that is as accurate as if your group

unread,

fMRIVolume pipeline: steps after minimal preprocessing

There is no way to project a group volume atlas to the surface that is as accurate as if your group

Aug 27

parham zargar2, Elam, Jennifer2

Aug 24

Connectome Workbench (macOS Qt6) – Maps not displaying fully

Hi Parham, Try this: Go to wb_view menu Select Preferences On Preferences dialog, click the Displays

unread,

Connectome Workbench (macOS Qt6) – Maps not displaying fully

Hi Parham, Try this: Go to wb_view menu Select Preferences On Preferences dialog, click the Displays

Aug 24

Dan Lurie, Glasser, Matthew2

Aug 20

Cleaned movement regressors for HCP-YA 2025 release?

That file will exist, but will not have the effects of temporal ICA cleanup applied. You would need

unread,

Cleaned movement regressors for HCP-YA 2025 release?

That file will exist, but will not have the effects of temporal ICA cleanup applied. You would need

Aug 20

Rogge-Obando, Kimberly K, Elam, Jennifer2

Aug 18

HCP 3T and HCP 7T scan date

Hi Kimberly, We don't have the 3T to 7T interval readily available. I will ask the team if they

unread,

HCP 3T and HCP 7T scan date

Hi Kimberly, We don't have the 3T to 7T interval readily available. I will ask the team if they

Aug 18

Glasser, Matthew, Estephan Moana4

Aug 14

Update to Data Files Available for HCP_MMPv1.0 Parcellation

Very nice little feature, I was not aware of it. Thanks for sharing. I'll keep an eye on the

unread,

Update to Data Files Available for HCP_MMPv1.0 Parcellation

Very nice little feature, I was not aware of it. Thanks for sharing. I'll keep an eye on the

Aug 14

11262...@qq.com, Harms, Michael3

Aug 13

How to calculate freesurfer style "MeanCurv" using HCP outputs

I have attempted to simply average the curvature values for each ROI, and the results are as follows:

unread,

How to calculate freesurfer style "MeanCurv" using HCP outputs

I have attempted to simply average the curvature values for each ROI, and the results are as follows:

Aug 13

Micha Burkhardt, … Glasser, Matthew4

Aug 13

Acessing the HCP-YA 2025 data from a cluster

Great, thank you for the quick responses! Von: 'Glasser, Matthew' via HCP-Users <hcp-users

unread,

Acessing the HCP-YA 2025 data from a cluster

Great, thank you for the quick responses! Von: 'Glasser, Matthew' via HCP-Users <hcp-users

Aug 13

Aug 13

Updated HCP-YA data released on new BALSA-based platform

HCP-Young Adult 2025 Release The HCP team is pleased to announce the release of updated imaging data

unread,

Updated HCP-YA data released on new BALSA-based platform

HCP-Young Adult 2025 Release The HCP team is pleased to announce the release of updated imaging data

Aug 13

Marco Pipoly, Glasser, Matthew5

Aug 12

Missing Dwell Time Information

Sure - see below { "Modality": "MR", "MagneticFieldStrength": 3, "

unread,

Missing Dwell Time Information

Sure - see below { "Modality": "MR", "MagneticFieldStrength": 3, "

Aug 12

Austin Cooper, Tim Coalson3

Aug 8

Create borders from dscalar.nii

Thanks a bunch, Tim! -cifti-label-import along with the border editing within workbench did just the

unread,

Create borders from dscalar.nii

Thanks a bunch, Tim! -cifti-label-import along with the border editing within workbench did just the

Aug 8

Shawn D'Souza, … Tim Coalson4

Aug 7

Connectome workbench download on linux ubuntu 24.04 This application failed to start because it could not find or load the Qt platform plugin "xcb" in "".

Hi thank you both for getting back to me. I was able to download it through miniconda/bioconda after

unread,

Connectome workbench download on linux ubuntu 24.04 This application failed to start because it could not find or load the Qt platform plugin "xcb" in "".

Hi thank you both for getting back to me. I was able to download it through miniconda/bioconda after

Aug 7

Xingju Nie, … Andreas Bartsch3

Aug 6

HCP style protocol for VE11E

Maybe a licensing issue? Are the MB sequences accessible and running in other protocols? Cheers,

unread,

HCP style protocol for VE11E

Maybe a licensing issue? Are the MB sequences accessible and running in other protocols? Cheers,

Aug 6

Yi-Hsuan Lin, Anderson Winkler3

Aug 5

Questions regarding cohen's d calculation in PALM

Hi Anderson, Thank you so much for the detailed explanation! It's really helpful. Best, Yi-Hsuan

unread,

Questions regarding cohen's d calculation in PALM

Hi Anderson, Thank you so much for the detailed explanation! It's really helpful. Best, Yi-Hsuan

Aug 5

Search

Clear search

Close search

Google apps

Main menu