Re: [HCP-Users] problems to download the example data to run HCP Pipelines and NHPPipelines

This has got to be a link from the Github Pipelines, right Vanessa? Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387

[HCP-Users] Last weeks to register for HCP Course 2019!

Reminder that it's the last few weeks to register for this year's HCP Course July 8 – 12, 2019 in beautiful, cool Portland, Oregon. We have room for you! Don't delay, our hotel booking deadline is one week from today, Saturday June 15. Check out the updated HCP Course schedule and faculty

Re: [HCP-Users] Item data for NIH Emotion battery

Hi Leonardo, Do you mean the NIH Toolbox Emotion domain? I can send you the TB data as a spreadsheet off list. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue

[HCP-Users] Announcing HCP Lifespan Aging and Development Release 1.0!

Announcing the first data release from the Lifespan Human Connectome Projects on the NIMH Data Archive (NDA)! Data from two studies of healthy individuals are now available to

Re: [HCP-Users] volumetric segmentation of subcortical structures

Hi Cecelia, Did you sign the data Use Terms when you logged into ConnectomeDB after creating an account? If not, click the "Data Use Terms Required" button and sign the terms: [cid:e7cb7ff5-f8e5-478a-860e-3f22d19abde1] After that, click Open Dataset and it will take you to

Re: [HCP-Users] Query regarding PSQI 'Other' scores

Hi Nicole, Yes, we do have information that subjects provided in an open field (5j. Describe: ) for PSQI 5.During the past month, how often have you had trouble sleeping because of... (j) Other reason(s), as described in 5j. pt2 0=Not during the past month, 1=Less than once a week, 2=Once or

Re: [HCP-Users] coding of videos in social task?

Hi David, The A and B versions allowed for tasks to be rerun on a subject who had an issue with their "A" run without running the exact same version of the task (which would bias the subject's responses). CCing Greg Burgess who can answer the question about the random condition. Best, Jenn

Re: [HCP-Users] BedpostX for 7T Diffusion data

Hi Kamal, No, we have not released bedpostX processed 7T diffusion data on HCP Young Adult subjects due to competing priorities, such as the advent of the Lifespan HCP-Development and HCP-Aging projects. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project

Re: [HCP-Users] Eye tracking data for 3T scans?

Hi Nicola, Yes, you are correct, we did not collect and release eye tracker data for 3T for HCP-Young Adult. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St.

[HCP-Users] Become an HCP Pipelines pro at HCP Course 2019!

Want to apply tools created by HCP experts to your own neuroimaging data? Always wanted to try the HCP Pipelines, but haven't had the time to test them out? This year's HCP Course July 8 – 12, 2019 in Portland, Oregon is featuring expanded, hands-on sessions to help you discover and use HCP

Re: [HCP-Users] TR : tutorial: resting state fMRI Scene is not working well with Connectome Workbench 1.3.2

Hi Vanessa, Sorry that the Charting Dense Timeseries section of the Scene 4 section of the Workbench Tutorial is not working. There was a major update to charting features in wb_view with the release of WB v1.3.0+. Due to other priorities we have not updated the WB Tutorial to incorporate

Re: [HCP-Users] Connectome workbench download security certificate

Euclid Avenue St. Louis, MO 63110 314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: hcp-users-boun...@humanconnectome.org on behalf of Elam, Jennifer Sent: Wednesday, March 27, 2019

Re: [HCP-Users] Connectome workbench download security certificate

Thanks Tom, we'll look into it and let you know when things are back up. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387

Re: [HCP-Users] HCP pipelines v4.0.0 released!

Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: hcp-users-boun...@humanconnectome.org on behalf of Elam, Jennifer Sent: Monday, Marc

[HCP-Users] HCP pipelines v4.0.0 released!

We are very happy to announce the release of v4.0.0 of the HCP pipelines!!! Notable changes and features of v4.0.0 * First supported release of multi-run FIX (MR-FIX) *

[HCP-Users] HCP Course 2019: Get ready for more data, and a new way of getting it

More HCP data are comingand will be released in a new way.will you be ready? This spring, the first data from the Lifespan Human Connectome Projects - (HCP) Development (healthy subjects ages 5-21) and HCP Aging (ages 36-100+) will be publicly released. Yay! Also, for the first time,

Re: [HCP-Users] A few questions about HCP behavioral data

Hi Xinyang, Mattis, and Kristina, Item Response Theory (IRT) was used to score the HCP Toolbox data, but this was done completely internally by the NIH Toolbox processing team and we don't have any other details beyond what is described in the NIH Toolbox Scoring and Interpretation Guide from

Re: [HCP-Users] Sharing HCP-derived brain networks and graph-theoric measures

Caio Seguin; Elam, Jennifer; hcp-users Subject: Re: [HCP-Users] Sharing HCP-derived brain networks and graph-theoric measures The "Upload Files" button on the Files modal should take you to a page with a widget that allows you to upload arbitrary files to your BALSA study. It is as

Re: [HCP-Users] Request for DTIV1_to_Workbench.sh

Hi Sally, Thanks for pointing us to the earlier message to the list with the script. I'll forward it to you with the attachments off the list and add it to our wiki for others to get if they need it. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington

Re: [HCP-Users] Inter-scan intervall of retst dataset

Hi Marlene, See https://wiki.humanconnectome.org/display/PublicData/Interval+between+Test+and+Retest+Visits+for+HCP+Retest+Subjects Interval between Test and Retest Visits for HCP Retest Subjects - Connectome Data Public - HCP Wiki - Human Connectome

Re: [HCP-Users] Detailed manual rating score of structural images

Hi Xuhong, All of the structural data released by HCP is of good or excellent quality (scores of 3-4 on our QC scale). We have not publicly released the exact ratings for released subjects. The file you are referring to is on our non-public wiki and is referred to as an example in the SOP for

Re: [HCP-Users] SNP documentation

Hopefully someone else on the list with more experience using genetic data can comment. We don't have any official documentation on using the HCP dbGaP data other than that available along with the dataset in dbGaP itself. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome

Re: [HCP-Users] Information of HCP Data

Hi Daniel, You also will find some additional information on the tasks in the 3T Task fMRI scripts and protocol details section (p. 45) of the S1200 Release Reference Manual. Best,

Re: [HCP-Users] Wb-command Problem

Hi Ben, You are not intended to double click wb_command or wb_import as applications, they are utilities that are used from a terminal or script (generally, after adding their location to your $PATH, per the install instructions in README.txt). Double clicking them from a folder window is

Re: [HCP-Users] Certification of Agreement to WU-Minn Human Connectome Project (HCP) Consortium Open Access Data Use Terms

Hi Michel, The Open Access Data Use terms are here: https://www.humanconnectome.org/study/hcp-young-adult/document/wu-minn-hcp-consortium-open-access-data-use-terms and can also be downloaded as a PDF from that site. Do you need a letter certifying that you have signed the OADUT? If so, we

Re: [HCP-Users] Installing HPC

Hi Ilaria, Sign up for a ConnectomeDB account here: https://db.humanconnectome.org Follow the instructions on pp. 24-25 of the S1200 Release Reference

Re: [HCP-Users] Restricted access

Hi Jodi, Let me have the database people look into this. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387

[HCP-Users] 2018 HCP Course Materials including Virtual Machine now available!

Announcing the release of all 2018 HCP Course materials, including lectures, practicals, and the course computer virtual machine (VM) with all software and data for completing practicals. These materials are available download from the 2018 HCP Course

[HCP-Users] s3://hcp-openaccess-temp bucket retired

Attention all users of HCP Data in our Amazon Web Services (AWS) S3 Bucket: Now that access to HCP Open Access data via the AWS s3://hcp-openaccess/ bucket has been restored, as of today, we have retired the temporary s3://hcp-openaccess-temp/ bucket. Please use the s3://hcp-openaccess/ bucket

Re: [HCP-Users] Individual Functional Connectivity Matrix

Hi Bryan, See HCP-Users FAQ #3 for instructions on computing functional connectivity for individual

Re: [HCP-Users] Intermediate freesurfer files not available through CREST?

This wiki page might help: https://wiki.humanconnectome.org/display/PublicData/How+To+Access+Subject+Data+via+REST How To Access Subject Data via REST - Connectome Data ... wiki.humanconnectome.org For the

Re: [HCP-Users] seeking a dataset for research

Hi Givon, HCP data is MRI and MEG-based neuroimaging data at the resolution of millimeters of brain volume and surfaces rather than at neuronal resolution. Perhaps others on the list are aware of datasets with the information you are seeking. Best, Jenn Jennifer Elam, Ph.D. Scientific

[HCP-Users] HCP AWS s3://hcp-openaccess-temp/ bucket retires Oct 1

Attention all users of HCP Data in our Amazon Web Services (AWS) S3 Bucket: Now that access to HCP Open Access data via the AWS s3://hcp-openaccess/ bucket has been restored, we will be retiring the temporary s3://hcp-openaccess-temp/ bucket as of Monday Oct 1, 2018. Over the next couple of

[HCP-Users] HCP AWS data back in s3://hcp-openaccess/ bucket

edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: hcp-users-boun...@humanconnectome.org on behalf of Elam, Jennifer Sent: Monday, July 2, 2018 3:12 PM To: hcp-users@humanconnectome.org Subject: [HCP-Users] HCP AWS data moving to temporary buc

Re: [HCP-Users] HCP Development - DTI protocol

Hi Reut, HCP Development uses a protocol based on the CCF Protocol template, which is available as a zip download of electronic protocols for import into a Siemens 3T Prisma for all MR modalities used, including dMRI: http://protocols.humanconnectome.org/CCF/ Best, Jenn Jennifer Elam,

Re: [HCP-Users] completely processed HCP data

Here's the documentation for the PTN release: https://www.humanconnectome.org/storage/app/media/documentation/s1200/HCP1200-DenseConnectome+PTN+Appendix-July2017.pdf The PTN datasets are available for download at https://db.humanconnectome.org/data/projects/HCP_1200 (login and acceptance of

Re: [HCP-Users] about the tfMRI

"TOM" stands for Theory of Mind or a mental interaction. Here's the info in the Reference Manual (p. 52) on the social task: Social Cognition (Theory of Mind) Participants were

Re: [HCP-Users] Question regarding intracranial volume

ctome.org/> From: D. van der Linden Sent: Thursday, August 30, 2018 8:01:52 AM To: Elam, Jennifer; Benjamin Risk Cc: hcp-users@humanconnectome.org Subject: Question regarding intracranial volume Dear sir, madam, I have a question regarding the HCP data.

Re: [HCP-Users] Unable to download data even if test on IBM Aspera Connect was all OK

Best, Tong From: Elam, Jennifer Sent: 24 August 2018 19:10 To: Wu, Tong ; hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Unable to download data even if test on IBM Aspera Connect was all OK Hi Tong, Our Aspera server is configured to use TCP and UDP Port 33001 for file trans

[HCP-Users] Workbench v1.3.2 Released

News from the Human Connectome Project (HCP) August 28, 2018 Connectome Workbench v1.3.2 Released Announcing the release of version 1.3.2 of Connectome Workbench (WB) brain visualization and analysis software. This release fixes

Re: [HCP-Users] Unable to download data even if test on IBM Aspera Connect was all OK

Hi Tong, Our Aspera server is configured to use TCP and UDP Port 33001 for file transfers instead of a common port such as Port 22. If you are downloading from behind an institutional firewall, please speak with your IT people to ensure that Port 33001 is open to both TCP and UDP traffic. You

Re: [HCP-Users] Documentation HCP genetic data

We have replied to Yann off list, but for the benefit of others on the list who are interested in the HCP genetic data: If you have questions about the HCP dbGaP data, please send them to dbgap-h...@ncbi.nlm.nih.gov – it’s a central collection place from

Re: [HCP-Users] Movie stimulus question

Hi Dan, To add to Keith's info, more detailed info on the 7T movie clip timing and on the origins of the clips themselves are in the attached CSVs which are also available on the HCP wiki: https://wiki.humanconnectome.org/x/coD4Bg Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human

Re: [HCP-Users] HCP lifespan diffusion gradient table

Hi Harith, You can download the CCF protocol template used for Lifespan which includes the diffusion gradient vectors from the link in the sidebar on this page: http://protocols.humanconnectome.org/CCF/ Download The CCF Protocol Template - Human Connectome

Re: [HCP-Users] Download HCP1200 PTN data

Hi Taicheng, The only way to download the PTN dataset is through ConnectomeDB using Aspera, which was not affected by the AWS bucket migration. It sounds like the problem is your firewall. Our Aspera server is configured to use TCP and UDP Port 33001 for file transfers instead of a common

Re: [HCP-Users] help with setup and analysis

Hi Omri, Once you login to your ConnectomeDB account and have signed the HCP Open Access Data use terms, you can download the neuroimaging data for individuals or groups of subjects in packages and the personality measures as part of the Behavioral CSV that is available on the Subject

Re: [HCP-Users] Tractography data for the 1200 subject release

-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Pubuditha Abeyasinghe Sent: Monday, July 30, 2018 12:59:56 PM To: Elam, Jennifer; hcp-users@humanconnectome.org Subject: Re: Tract

Re: [HCP-Users] Tractography data for the 1200 subject release

Hi Pubuditha, 1200 Subjects release contains updated preprocessed and FSL's bedpostX-processed 3T diffusion data on all subjects, which should get you part of the way toward your goal. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School

Re: [HCP-Users] Working Memory Recognition Task

Hi Briana, The last line of this paragraph on p. 50 of the Reference Manual answers your question: Recognition Memory After participants exit the scanner from the session that includes

Re: [HCP-Users] Movie tasks fMRI

Hi Michel, The Movie stimulus files used for 7T are available on the S1200 Project page in ConnectomeDB under "Task Resources". See more info on the 7T movie watching experiment on pp.59-61 of the S1200 Reference

Re: [HCP-Users] Accessing 7T data in the temporary s3 bucket

Hi John, Actually, the 7T HCP data is not available on AWS S3 yet due to changes in the AWS public access program that have necessitated a switchover to a new HCP AWS account and the creation of the temporary hcp-openaccess-temp S3 bucket. Once we have the hcp-openaccess S3 bucket back up under

Re: [HCP-Users] mounting temp bucket

Hi Daniel, I asked Tim Coalson if he had any advice for you and he replied with the following in case it helps you in solving the problem: On Wed, Jul 18, 2018 at 10:05 PM, Timothy Coalson mailto:tsc...@mst.edu>> wrote: After some quick attempts at s3fs, I am

Re: [HCP-Users] questions about the out-scanner NIH Processing speed task

Hi Xinyang, From the NIH Toolbox website: Some PROMIS domains (processing speed is a PROMIS measurement) have multiple versions of instruments (i.e. v1.0, v1.1, v2.0). Generally, it is recommended that you use the most recent version available which can be identified as the instrument with

[HCP-Users] HCP AWS data moving to temporary bucket location on July 5th, 2018

Attention all users of HCP Data in our Amazon Web Services (AWS) S3 Bucket: Recent changes in the AWS Public Dataset Program have required migration of HCP data stored in AWS S3 to a new account. As part of this transition, we must temporarily disable access to the current s3://hcp-openaccess/

Re: [HCP-Users] Repeated measurement in HCP outscanner behavioral data

9, 2018 6:38:24 AM To: Elam, Jennifer Cc: HCP 讨论组 Subject: Re: [HCP-Users] Repeated measurement in HCP outscanner behavioral data Dear Jennifer, Thanks a lot for your reply. So in this case, either set is ok to use, right? :) Please find the subID list of the DCCS task attached

Re: [HCP-Users] Repeated measurement in HCP outscanner behavioral data

Can you share a list of subjects where you see 60 trials for the DCCS task? Likely these subjects are HCP Retest subjects who went through the entire protocol twice (about 6 months or so between acquisitions, depending on the subject) and therefore have two sets of responses/imaging datasets.

[HCP-Users] Workbench v1.3.1 Released - a few bug fixes and new features

News from the Human Connectome Project (HCP) June 5, 2018 Connectome Workbench v1.3.1 Released Announcing version 1.3.1 of Connectome Workbench (WB) brain visualization and analysis software, which fixes a few bugs and adds a

[HCP-Users] Spaces added, register today for HCP Course 2018!

If you are considering joining us for the 2018 HCP Course: "Exploring the Human Connectome" June 25 – 29 at the University of Oxford, a few additional lodging rooms at Worcester College have opened up for just $675 for 6 nights, first come first served. For more info and

Re: [HCP-Users] Experiencing downloading problems

From: Michel Thiebaut <michel.thieb...@gmail.com> Sent: Friday, May 25, 2018 1:44:34 AM To: Elam, Jennifer Cc: hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Experiencing downloading problems Hi Jenn, I tried again this morning on two computers. I'm afraid it

Re: [HCP-Users] Downloading tutorial data

:59:03 AM To: Elam, Jennifer Cc: hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Downloading tutorial data Hi, Thanks for the quick reply. I just tried it again, but it is still hanging. Thanks, Mahinda On 24 May 2018, at 14:45, Elam, Jennifer <e...@wustl.edu<mailto:e...@wustl.edu>&

Re: [HCP-Users] Downloading tutorial data

Hi Mahinda, We had an issue with our download server that we just resolved, so please try your download again. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St.

Re: [HCP-Users] Experiencing downloading problems

. Louis, MO 63110 314-362-9387 e...@wustl.edu www.humanconnectome.org From: Michel Thiebaut <michel.thieb...@gmail.com> Sent: Thursday, May 24, 2018 1:39:11 AM To: Elam, Jennifer Cc: hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Experiencing downl

Re: [HCP-Users] Experiencing downloading problems

ctome.org/> From: hcp-users-boun...@humanconnectome.org <hcp-users-boun...@humanconnectome.org> on behalf of Elam, Jennifer <e...@wustl.edu> Sent: Wednesday, May 23, 2018 11:32:18 AM To: Michel Thiebaut; hcp-users@humanconnectome.org Subject: Re: [HCP-Users]

Re: [HCP-Users] Experiencing downloading problems

Hi Mich, Could you try the download again? We had an outage earlier this morning, but we are hoping that everything is working now. Let us know how it goes. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of

Re: [HCP-Users] sharing of statistics from HCP analysis

Hi Joseph, As long as the data you are sharing doesn't list restricted data for individual subjects (that could be used to identify subjects) it should be fine to share per our data use terms. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington

Re: [HCP-Users] Age problem

Hi Felix, Access to exact age data for HCP subjects requires approval for Restricted Data access which can be applied for with this form: https://www.humanconnectome.org/storage/app/media/data_use_terms/DataUseTerms_HCP_RestrictedAccess_30Nov2017.pdf Once you have access, you can download the

Re: [HCP-Users] question about link to behavioural measures docs

Hi Joelle, Please download and use the spreadsheet versions of the Data Dictionary available at: https://wiki.humanconnectome.org/display/PublicData/HCP+Data+Dictionary+Public-+Updated+for+the+1200+Subject+Release Also, for citations please refer to Chapter 5: Behavioral and Individual

[HCP-Users] Reminder to Register for HCP Course 2018

Only a few weeks until 2018 HCP Course: "Exploring the Human Connectome" in Oxford, UK! For more info and to register visit the HCP Course 2018 website. A limited number of registrations with accommodation at

Re: [HCP-Users] Help with Q13 acquisition subjects structural data download?

Hi Magda and Thomas, Our Aspera server went down over the weekend. Please try your download again and let us know if you continue to have errors. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience,

[HCP-Users] WB v1.3.0 Released!

News from the Human Connectome Project (HCP) May 8, 2018 Connectome Workbench v1.3.0 Released The WU-Minn HCP Consortium is pleased to announce that version 1.3.0 of Connectome Workbench (WB) brain visualization and analysis

Re: [HCP-Users] Adjusting EV timing text files in EMO task

Hi Michelle, Greg may want to add more, but I think what you are seeing is related to the bug in the Emotion task as described on p54 of the S1200 Release Manual: Note: A bug was

Re: [HCP-Users] existing datasets for fmri+diffusion in children through young adults?

Hi Keith, The PING study might be a possibility, although it is a little unclear from their data site if the data are still being shared to the community for those that don't already have an account on their portal.

Re: [HCP-Users] alcohol dependence measure in the restricted data set

Hi Peter, 1. 5= Yes, they have met DSM4 criteria for Alcohol Dependence at some point over their lifetime (not necessarily at time of SSAGA screen). 1= No, they have never met DSM4 criteria for Alcohol Dependence at any point over their lifetime. I will add the clarification to the data

Re: [HCP-Users] Workbench vs 3DSlicer?

Hi Hae-Min, I can't comment on 3DSlicer, but despite the activity on Github, we continue to actively develop new features for Workbench, both for wb_command and the wb_view GUI. In fact, we are currently preparing for a v1.3 Workbench release to occur in a matter of weeks. Best, Jenn

[HCP-Users] HCP Course 2018 at Oxford: Final Course Schedule posted -- Register Now!

Faculty listings and the full schedule of covered topics are now available for the 2018 HCP Course: "Exploring the Human

Re: [HCP-Users] Mismatch in directory structure HCP 1200 subject release

Hi Michelle, The subjects you listed are all subjects who did not complete the Gambling task runs and therefore have no gambling tfMRI data. The "known issues" addressed on the wiki do not include listings of data we did not collect on individual subjects due to the subject not tolerating the

Re: [HCP-Users] Unsubscribe

You are unsubscribed. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387 e...@wustl.edu

Re: [HCP-Users] HCP Young Adult Genetics Data Released on dbGaP!!

314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Juranek, Jenifer <jenifer.jura...@uth.tmc.edu> Sent: Friday, April 13, 2018 11:24:04 AM To: Elam, Jennifer; hcp-users@huma

Re: [HCP-Users] HCP Young Adult Genetics Data Released on dbGaP!!

@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Juranek, Jenifer <jenifer.jura...@uth.tmc.edu> Sent: Thursday, April 12, 2018 10:03:18 PM To: Elam, Jennifer; hcp-users@humanconnectome.org Subject: Re: H

[HCP-Users] Reprocessed 7T fMRI data released + S1200 updates

News from the Human Connectome Project (HCP) April 11, 2018 The HCP consortium is pleased to announce the release of fully reprocessed 7T fMRI data for 184 HCP-Young Adult (HCP-YA) subjects for download on ConnectomeDB. The rerelease corrects the error in the 7T

Re: [HCP-Users] Fwd: analysing the 7T rsfMRI

Hi Aser, First off, if you have 7T preprocessed rfMRI data that we previously released, do not use it. There was a processing error that we have now fixed and are preparing to rerelease the corrected preprocessed data in the next couple of weeks. If you are processing the unprocessed 7T data

Re: [HCP-Users] FW: asking for one method to combine LR.nii and RL.nii of dMRI or fMRI data of HCP lifespan pilot 1a

We are not planning to have an initial Lifespan data release until sometime in the first half of 2019. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis,

Re: [HCP-Users] 7T resting state data

Hi Janine, There was a bug in the processing of the 7T functional data we originally released, so we have reprocessed the data from all 184 subjects and are preparing the data for release, likely by the end of this month. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome

[HCP-Users] Connectome in a Box program ending: Final orders taken until 3/31/18

Our inventory is down to our last 3 sets of S1200 HCP Young Adult Connectome in a Box drives available for ordering through March 31, 2018, the end date for the Connectome in a Box program. Orders for the remaining drives will be taken on a first-come, first-served basis at

Re: [HCP-Users] question about mother vs. non-mothers in the HCP 1200

Hi Osama, We did not ask the participants specifically about whether they were parents, but in the Restricted data there is a variable called "Menstrual_Explain" where the female participants can give an explanation for why their current cycles are irregular in length. About 25 participants

Re: [HCP-Users] Pittsburgh Sleep Quality Index Component Scores

Hi Ely, The PSQI Component scores are already available in ConnectomeDB. We don't have plans to release the MMSE component scores. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660

[HCP-Users] HCP Young Adult Genetics Data Released on dbGaP!!

News from the Human Connectome Project (HCP) March 2, 2018 The Human Connectome Project (HCP) WU-Minn consortium is pleased to announce the release of all SNP Genotypes collected for HCP-Young Adult (HCP-YA) subjects on dbGaP: Mapping the Human Connectome - Structure, Function, and

Re: [HCP-Users] Correct interpretation of NIH battery test 'Words-in-Noise' in HCP subjects

Hi Robert, Thank you for pointing us to this problem. The HCP Words in Noise score is indeed the NIH Toolbox Words in Noise (WIN) Test computed score, rather than the Toolbox Hearing Threshold Test that was erroneously used for the description in the Data Dictionary. We will fix the data

Re: [HCP-Users] Self-regulation data

Hi Aldo, The delay discounting trial response time data is available by request by anyone who has signed the HCP Open Access data access terms. I can send these to you off the list. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of

Re: [HCP-Users] scan order, session day, scan time variables

Hi Csaba, I believe that information is still only available per subject in the {Subject_ID}_3T.csv file in the Structural unprocessed and Structural preprocessed packages. Unpacked, the file should appear in the {Study_ID}/{Subject_ID}/unprocessed/3T and {Study_ID}/{Subject_ID}/T1w

Re: [HCP-Users] Partial correlations ?

Hi David, The partial correlation netmats for all the different ICA dimensionalities should be in the HCP1200 PTN datasets available at https://db.humanconnectome.org/data/projects/HCP_1200 in the netmats_3T_HCP1200_MSMAll_d*_ts2.tar.gz tarball contained within the datasets for the two groups

Re: [HCP-Users] hcp preprocessed data in MNI space

Hi Ze, The cleaned NIFTI data for the 2 resting state sessions are in the Resting State fMRI 1 FIX-Denoised (Extended) and Resting State fMRI 2 FIX-Denoised (Extended) packages. The cleaned grayordinate data for both sedssions are in the Resting State fMRI FIX-Denoised (Compact) package. The

Re: [HCP-Users] ETA for reprocessing of 7T preprocessed fMRI volume data

Euclid Avenue St. Louis, MO 63110 314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Nina de Lacy <dela...@u.washington.edu> Sent: Friday, February 16, 2018 11:37:25 AM To: Elam, Je

Re: [HCP-Users] [SPAM] References about image reconstruction algorithms

Hi Javier, The only citation describing both the image reconstruction algorithms is the HCP 1200 Subjects Reference Manual on pp. 39-40. The original r177 algorithm is more fully discussed in the following that you should cite : Ŭgurbil K, Xu J, Auerbach EJ, Moeller S, Vu A, Duarte-Carvajalino

Re: [HCP-Users] Behavior data

Hi Jodi, Have you tried the S1200 Reference Manual Chapter 5 (p.177 and following) on the Behavioral measures details? Also, many references are in the Barch et al.

Re: [HCP-Users] Group contrasts for fmri tasks

Hi Dorothy, Group average Cohen's D activation task fMRI contrast maps are available in the 1200 Subjects Group Average dataset available on the S1200 HCP Project page. We recommend also downloading Connectome

Re: [HCP-Users] S1200 complete dataset download

Hi Michelle, I would use the subject filters at the top of the Subject Dashboard to filter for only subjects with 3T MR data (here's a link that might work for that search

Re: [HCP-Users] missing movement_regressors.txt file

Hi Michelle, You need to mount to the /s3/HCP_1200 bucket for the full S1200 subject data. the /s3/HCP bucket only includes data on subjects released in the 500 subjects release (Nov 2014). Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University

Re: [HCP-Users] [SPAM] about the unrestricted data

anconnectome.org <hcp-users-boun...@humanconnectome.org> on behalf of Elam, Jennifer <e...@wustl.edu> Sent: Monday, January 29, 2018 4:34:29 PM To: 罗; hcp-users Subject: Re: [HCP-Users] [SPAM] about the unrestricted data Acquisition Q1- Q13 is the quarter the subject's data were co

Re: [HCP-Users] Pain intensity scores

Hi Ely, The NIH Toolbox pain intensity raw scores were collected and are in the attached spreadsheet (Retest subjects have 2 scores, first is for the original visit, second for the retest visit). It is still in our queue to get these into ConnectomeDB for open access release. Best, Jenn

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