[HCP-Users] HCP Course 2016 Update: Faculty and Curriculum topics

Faculty and Curriculum topics are now available for the 2016 HCP Course: "Exploring the Human Connectome". Attendee spots are

[HCP-Users] Reminder about HCP-Users/HCP-Announce Account maintenance

Reminder that if you would like to unsubscribe or change the settings of your HCP-Users or HCP-Announce list membership please use the forms at these links: HCP-Users: http://lists.humanconnectome.org/mailman/listinfo/hcp-users HCP-Announce:

Re: [HCP-Users] Reminder: NIH Connectome Celebration 2016 Webcast tomorrow 12:30pm EDT

nconnectome.org/> ____ From: Elam, Jennifer Sent: Monday, June 20, 2016 11:31 AM To: hcp-users@humanconnectome.org; hcp-annou...@humanconnectome.org Cc: Horton, William Subject: Re: [HCP-Users] Reminder: NIH Connectome Celebration 2016 Webcast tomorrow 12:30pm EDT Connectome Cele

[HCP-Users] Initial 7T Data Release of Data from 73 HCP S900 Subjects!

News from the Human Connectome Project (HCP) June 20, 2016 The Human Connectome Project (HCP) WU-Minn consortium is pleased to announce our first release of 7T MR image data from 73 of the HCP 900 Subjects! What's in the HCP 900 Subjects + Initial 7T data release? The 900 Subjects +7T-1

Re: [HCP-Users] Reminder: NIH Connectome Celebration 2016 Webcast tomorrow 12:30pm EDT

om: hcp-users-boun...@humanconnectome.org <hcp-users-boun...@humanconnectome.org> on behalf of Elam, Jennifer <e...@wustl.edu> Sent: Sunday, June 19, 2016 6:47:54 PM To: hcp-users@humanconnectome.org; hcp-annou...@humanconnectome.org Cc: Horton, William Subject: [HCP-Users] Reminder: N

[HCP-Users] Reminder: NIH Connectome Celebration 2016 Webcast tomorrow 12:30pm EDT

Tomorrow, June 20, the NIH is hosting Connectome Celebration 2016, a celebration of HCP progress to date and a look to the future of HCP-Lifespan projects, Baby Connectome Project, Connectomes

Re: [HCP-Users] One subject information missing

Subject 599065 is Male. We will correct this info in ConnectomeDB. Thanks, 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] WB v1.2.0 Released!

News from the Human Connectome Project (HCP) May 19, 2016 Connectome Workbench v1.2.0 Released The WU-Minn HCP Consortium is pleased to announce that version 1.2.0 of Connectome Workbench (WB) brain visualization and analysis software is now available at

Re: [HCP-Users] Some questions about the usage of Connectome Workbench

HI Aaron, In answer to your #2 question... There are S900 group average data and surfaces available in the 900 Subjects Group Average Data section of the HCP S900 project page in ConnectomeDB https://db.humanconnectome.org/data/projects/HCP_900 Best, Jenn Jennifer Elam, Ph.D. Scientific

Re: [HCP-Users] Scan order variable

Hi Janine, As you point out this info is available in ConnectomeDB and there are csv's generated in our unprocessed packages that give this scan information per subject. We are working on the issue of making this info more conveniently available as a single zip of all these csv's for the S900.

[HCP-Users] HCP Course 2016 Update: Full Course Schedule

The full Course Schedule is now available for the 2016 HCP Course: "Exploring the Human Connectome". Attendee spots are filling

[HCP-Users] Connectome Workbench v1.2.2 Released

News from the Human Connectome Project (HCP) July 20, 2016 Connectome Workbench v1.2.2 Released Version 1.2.2 of Connectome Workbench (Workbench or WB) brain visualization and analysis software is now available at http://humanconnectome.org/connectome/get-connectome-workbench.html for

[HCP-Users] MEG Subjects Connectome in A Box now available for order

MEG Subjects Connectome in a Box Now Available A 1-disk (8TB) version of Connectome in a Box which contains all MEG and MR data for all 95 HCP subjects for which MEG data were collected is now available for order (cost is currently $217 + shipping). As with all Connectome in a Box orders, we

Re: [HCP-Users] Connectome workbench 1.2.2 doesn't work under Win 8

Hi Aaron, When did you download WB 1.2.2? There was a bug in the Windows version that got fixed and the distribution was updated yesterday at about 1:15pm CDT. Hopefully downloading the Win version again will fix the issue. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human

Re: [HCP-Users] 900 group average: are individual subjects the "S500 Release Subjects" + the "S900 New Subjects"

edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Xavier Guell Paradis <xavie...@mit.edu> Sent: Friday, February 3, 2017 11:43:18 AM To: Elam, Jennifer; hcp-users@humanconnectome.org Subject: RE: [HCP-Users] 900 group average: are i

Re: [HCP-Users] Genotyping data

Hi Daniel, Genotyping data on HCP subjects has not yet been released but should be available sometime in March 2017 from dbGaP. When we announce the release on the HCP-announce and HCP-Users email lists (if you aren't a member of HCP-announce or HCP-users, sign up

Re: [HCP-Users] HCP-Users Digest, Vol 50, Issue 40

." Today's Topics: 1. Re: Unrelated subjects (Elam, Jennifer) 2. Very large z values for task contrasts in S900_ALLTASKS_level3_zstat file: what does this mean in terms of statistical significance? (Xavier Guell Paradis) 3. Re: Very large z values for task contrasts in

Re: [HCP-Users] requesting HCP diffusion multi shell gradient table for Siemens

Hi Osama, The .txt file with vectors for the HCP dMRI protocol is here: https://wiki.humanconnectome.org/display/PublicData/Gradient+Vector+Direction+table+for+HCP+dMRI Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine

Re: [HCP-Users] How have the genetic data for HCP been collected?

Hi Todd, We processed blood and saliva samples from HCP subjects for GWAS using the Illumina Mega Chip (has 2M multiethnic SNPs), plus three specialized Illumina chips to look for single nucleotide polymorphisms particularly relevant to neuroimaging studies: Psych chip, NeuroX chip, and

Re: [HCP-Users] 900 group average: are individual subjects the "S500 Release Subjects" + the "S900 New Subjects"

Mike just answered while I was writing this, but for everyone's benefit who need to do something similar: To get the list of subjects that were included in the S900 group average task analysis, you need to go to the subject dashboard (click on Explore All Family Subjects to get there from the

Re: [HCP-Users] Unrelated subjects

63110 314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> ____ From: Elam, Jennifer Sent: Thursday, January 26, 2017 10:12:08 AM To: Ewert, Siobhan Geraldine; hcp-users@humanconnectome.org Subject: R

Re: [HCP-Users] Unrelated subjects

g<http://www.humanconnectome.org/> ____ From: Elam, Jennifer Sent: Thursday, January 26, 2017 10:30 AM To: Ewert, Siobhan Geraldine; hcp-users@humanconnectome.org Subject: Re: Unrelated subjects I forgot to mention for everyone's benefit that you can find the reconstruction version

Re: [HCP-Users] 2016 Course Material Download

Hi Tim, PDFs of the lectures and practical instructions are now available on the 2016 Course website. Competing priorities have delayed the release of a 2016 virtual machine with all the software and data used

Re: [HCP-Users] Expected date of 1,200 subjects release?

ctome.org/> From: Xavier Guell Paradis <xavie...@mit.edu> Sent: Saturday, February 11, 2017 1:34:19 PM To: Elam, Jennifer; hcp-users@humanconnectome.org Subject: RE: Expected date of 1,200 subjects release? Dear Jenn, Thank you for your reply. Will this release include all level 2 and

Re: [HCP-Users] QC of structural MR images - protocol and example data

Hi Antonin, As a start, the current HCP SOP document which is Appendix 4 to the Reference Manual, has a section on Post Session 1 QC Evaluation of Structural Image Quality starting on p. 17 that has most of

Re: [HCP-Users] Lifespan Pilot Data Releases

Hi Ursula, We do still plan to release more of the Lifespan pilot data, but we have had to move that down our priority list as we finalize all the original HCP young adult data for release and have begun the Lifespan HCP Development and Lifespan HCP Aging projects. Also, because of some

Re: [HCP-Users] Question regarding Twins in HCP

Hi Dimitri, Since your message was in response to an offline thread, for the benefit of the HCP-Users list, let me explain what you are referencing regarding dizygotic (DZ) twins that were "mislabeled" as monozygotic (MZ). Zygosity and other family structure information currently available in

Re: [HCP-Users] Glasser nature atlas

Hi Peter, The data for the new parcellation are available in the BALSA database, see this thread: http://www.mail-archive.com/hcp-users@humanconnectome.org/msg02876.html We recommend using the included Connectome Workbench scene file to conveniently view the data in the wb_view part of the

Re: [HCP-Users] Lifespan Pilot Subject Scans

Hi David, You are right that there we did collect more data for the Lifespan Pilot Project that has not yet been released. The data were processed for use in the preliminary report, but we have since made some improvements to our processing pipelines and we have it on our to do list to

[HCP-Users] Connectome Workbench v1.2.3 now available!

News from the Human Connectome Project (HCP) August 26, 2016 Connectome Workbench v1.2.3 Released The WU-Minn HCP Consortium is pleased to announce that version 1.2.3 of Connectome Workbench (WB) brain visualization and analysis software is now available at

Re: [HCP-Users] Release date of 1200 participants?

Hi Josh, The 1200 release will likely be in the late November-mid December 2016 time frame. We expect to be releasing a little less than 300 new subjects with behavioral data (takes us to the 1200 number), with about ~200 of these new subjects with imaging data. Some subjects over the

Re: [HCP-Users] dense structural connectivity based on probabilistic tractography

Hi Selen, Neither tractography dense connectomes nor bedpostx processed datasets have yet been released. We do still plan to release these, but because of competing priorities and a new version of FSL's Eddy, we are still working on the diffusion processing. We expect to release some of this

Re: [HCP-Users] Bedpostx data release

Hi Vasudev, Due to shifting priorities/tying up loose ends at the end of the HCP project and some changes to the diffusion prepocessing pipeline, including an improved version of Eddy, we had to put this processing on hold for several months. However, we do plan to release bedpostX processed

Re: [HCP-Users] 7T structural data

Hi Vasudev, We did not collect 7T structural scans on any subjects because there were limited, if any, benefits over the 1.6mm 3T structural scans collected on all subjects. We decided to spend our limited 7T scan time on other scans that would add more valuable, unique data to the project.

Re: [HCP-Users] (files) listing for file bundles

Hi Yaroslav, A listing of the by subject unpacked files available, organized by modality and processing level, are available in Appendix 3 of the Reference Manual. The files are listed there as they unpack

Re: [HCP-Users] data release

Hi Chris, We are currently working on finishing up processing for the 1200 Subjects Release (~1100 with image data) and, if all goes well, we plan to release the data in January 2017. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School

Re: [HCP-Users] quality control

Hi Tanmay, The HCP Functional_QC pipeline is available on Github: https://github.com/Washington-University/hcp_functional_qc_pipeline_customizations/releases This pipeline is designed to be run

Re: [HCP-Users] MNI mask in minimally processed fMRI data

Hi Nina, I believe the answer to your question is in Glasser et al. 2013 in the HCP pipelines: fMRIVolume section. If I'm reading it correctly, the brain mask is the final brain mask from the PostFreeSurfer pipeline for that

Re: [HCP-Users] Creating Group Average Resting State fMRI

Hi Grace, You might also want to check out the instructions for creating individual and group average dense rfMRI connectomes in item #3 in the HCP Users FAQ on our wiki:

Re: [HCP-Users] Creating Group Average Resting State fMRI

e Shearrer, PhD Post Doctoral Researcher Neuropsychology of Ingestive Behavior Lab University of North Carolina Chapel Hill ________ From: Elam, Jennifer <e...@wustl.edu> Sent: Wednesday, January 4, 2017 4:57 PM To: Shearrer, Grace; aus...@gmail.com; HCP-Users@humanconnecto

Re: [HCP-Users] Bedpostx data release

gmail.com> Sent: Wednesday, January 4, 2017 1:36:52 PM To: Elam, Jennifer Cc: <hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] Bedpostx data release Dear madam, Once your team releases Bedpostx data, kindly please notify it in HCP forums. Thanks Vasudev On 14 November 2016 at 1

Re: [HCP-Users] 7T retinotopy MRI scanning sequence

Hi Bo Yong, Attached is the 7T Retinotopy protocol off the scanner and here is a summary of scan parameters: [cid:2ad53be7-ec12-4d0f-bf19-c6ddc70c7353] The stimulus size/diameter was 16.0 deg for HCP 7T, which is especially important for the retinotopy data. This is calculated from these

Re: [HCP-Users] (files) listing for file bundles

.@onerussian.com> Sent: Tuesday, December 6, 2016 1:47:19 PM To: hcp-users@humanconnectome.org Subject: Re: [HCP-Users] (files) listing for file bundles On Tue, 06 Dec 2016, Elam, Jennifer wrote: >A listing of the by subject unpacked files available, organized by >modality and proce

Re: [HCP-Users] thresholding the data to p-value

Hi Tim, After you turn the threshold on and set values for a high and a low threshold for a map, selecting the "Show Data Inside Thresholds" button will display data from the map that falls between those values and selecting "Show Data Outside Thresholds" will display data from the map that

[HCP-Users] HCP Course 2017: Faculty and Course Schedule Available -- Register Now!

Faculty listings and the full schedule of covered topics are now available for the 2017 HCP Course: "Exploring the Human

Re: [HCP-Users] Question regarding Twins in HCP

ttp://www.humanconnectome.org/> From: Yann Le Guen <yann.legue...@gmail.com> Sent: Monday, March 6, 2017 6:13:38 AM To: Elam, Jennifer Cc: hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Question regarding Twins in HCP Dear All, Another follow up question rega

Re: [HCP-Users] reference surface file for probtrackx2

Hi Govinda, Thanks, Matt. That file is in the structural preprocessed package, if you don't already have it for the subject you are working on. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience,

Re: [HCP-Users] reference surface file for probtrackx2

o:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> ____ From: Elam, Jennifer Sent: Sunday, March 19, 2017 11:49:06 AM To: Glasser, Matthew; Govinda Surampudi; hcp-users Subject: Re: [HCP-Users] reference surface file for probtrackx2 Hi Govi

Re: [HCP-Users] 1200-subject release on AWS

It is looking like it will be at least a month before S1200 data will be available on Amazon S3. Sorry for the delay due to competing priorities for the staff involved. Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department

Re: [HCP-Users] physiological log files

Hi Csaba, My understanding is that both of those physio log txt files are the same and correct. We put them in two locations so that users would have them in cases where they only downloaded just the unprocessed data or just the processed data. Best, Jenn Jennifer Elam, Ph.D. Scientific

Re: [HCP-Users] SNP information and taste

Hi Daniel, You will have to wait for the release of the data. We are currently working through the logistics and plan to upload the genotyping data on all subjects with genotyping results en masse to dbGAP or a similar database. It will then be up to the users to pull out genotyping data on

Re: [HCP-Users] Parental Education from NIH Toolbox Measures

Hi Briana, In the HCP young adult study (subject data collected 2012-2015), we used the original desktop version of NIH Toolbox, and it did not require parental education data to be collected, so we did not collect that information and it is not available. The current version of NIH Toolbox,

Re: [HCP-Users] About the numbers of DZ twins and MZ twins

Hi Qinqin, Information on twin zygosity by self report (ZygositySR) and twin zygosity by genetics (ZygosityGT) are both only available in ConnectomeDB with restricted access. Note, ZygosityGT only has a value when both twins in the pair have genetic data to compare and have been verified to

Re: [HCP-Users] Number of twins in group of subjects: would this be considered "publishing restricted data"?

Hi Xavier, As long as it is general information about the group as you describe, that is fine for publication. What is not allowed is publishing subject IDs of pairs that are identified as twins in the publication. More generally, publishing Subject IDs in conjunction with any of the

Re: [HCP-Users] Question regarding Twins in HCP

9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Benjamin Risk <bb...@cornell.edu> Sent: Friday, March 3, 2017 9:16:56 AM To: Elam, Jennifer Cc: D. van der Linden; hcp-users@humanconnecto

Re: [HCP-Users] item-level data for Achenbach Adult Self-Report

Hi Cherry, We do not have the ASR item level data currently on ConnectomeDB. The Raw and Age-adjusted percentile scores for Anxiety/Depressed, Withdrawn, Attention Problems, etc. are available currently on DB as restricted data measures for those with restricted data access, if that will

Re: [HCP-Users] Missing Behavioral Files

Hi Ya'el (and Jo), We've looked more into the issue you raised about 16 subjects with missing TAB.txt files for the WM tasks. It turns out the issue is bigger than that, with ALL the *TAB.txt and *Physio_log.txt files missing in the {Subject_ID}/MNINonLinear/Results directories for ALL the

[HCP-Users] S1200 Group Average Data Release

News from the Human Connectome Project (HCP) August 1, 2017 We are pleased to announce the release of group-average structural and functional MRI data for the HCP S1200 young adult subjects. The dataset includes : * group average T1w, T2w, and T1w divided by T2w volumes * group average

Re: [HCP-Users] opposite sex dizygotic twins

Hi Peka, In the released genotyping-verified DZ twins, there actually is one M/F twin pair, but only one, which is unexpected if our recruiting of twins were matched to the population. Although we did not specifically exclude DZ twins discordant in sex for HCP, we did recruit most of our twin

Re: [HCP-Users] aspera dowload trouble

me.org<http://www.humanconnectome.org/> From: Michael Stauffer <mgsta...@gmail.com> Sent: Thursday, August 10, 2017 2:11:56 PM To: Elam, Jennifer Cc: hcp-users@humanconnectome.org; Hileman, Michael Subject: Re: [HCP-Users] aspera dowload trouble Elam

Re: [HCP-Users] saving one of the .dconn maps as a separate cifti?

Hi Xavier, When you have the .dconn file open in wb_view and have clicked on the desired seed location, click on the Connectivity tab in the Overlay Toolbox, then click the "Copy" button next to the loaded .dconn file listed. [https://outlook.office.com/owa/?realm=wustl.edu] Then go to File

Re: [HCP-Users] Single Subject Parcellation

Hi Nicolò, Matt Glasser did have a lecture on applying his multimodal group parcellation MMP1.0 (see https://balsa.wustl.edu/study/show/RVVG) to individual subjects at the HCP Course. We intend to make a pipeline that does this and run it on all HCP subjects, but it is in a long list of

Re: [HCP-Users] Mass lesion in subject# 105620 at the posterior corpus callosum

Hi Frank, We found that issue for subject 105620 in our anatomical image QC (issue code A) and it was classified as a "Small posterior midline arachnoid cyst" which is a finding considered as a normal variant or benign. We took great care not to release any subject data that is considered

Re: [HCP-Users] S900 -> S1200 path?

Hi Michael, Due to the complexities and sheer size of the dataset we don't have a "patch" connectome in a box available. However, going from S900 to S1200 is not that complex as long as you are willing to wait on the downloads. There are not that many modifications in the processing between

Re: [HCP-Users] AWS download fees?

Hi Michael, As far as I've heard, users have been able to download the HCP data from our AWS S3 bucket without download fees as part of the public datasets program. It is possible that this free downloading has changed recently. Maybe someone else on the list has tried it recently and can tell

Re: [HCP-Users] mapping HCP data into 7 functional networks (using Thomas Yeo parcellation)

Hi David, With 59k vertices, it sounds like you are using the versions of the HCP individual data that was preprocessed at 1.6mm resolution for use with the 7T data contained in the "Structural Preprocessed for 7T (1.6mm/59k mesh)" package in ConnectomeDB. The 3T "Structural Preprocessed"

[HCP-Users] Extensively Processed rfMRI data for S1200 Released!

News from the Human Connectome Project (HCP) July 21, 2017 The HCP WU-Minn consortium is pleased to announce the release of extensively processed 3T rfMRI data associated with the HCP S1200 Data Release, the final release of subjects from the Young Adult HCP. This release includes group

Re: [HCP-Users] Connectome workbench data

Hi Janine The group average dataset for Workbench should be out within the next week. 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

Re: [HCP-Users] Individual multi-modal parcellations

Hi Konrad, The individual parcellations are not out yet. It is still on our to do list, but we are currently backed up with reprocessing the 7T fMRI data and starting pilot processing on the first HCP Lifespan Development and Aging subjects. We will make an announcement when we do release the

[HCP-Users] 1200 Subjects "Connectome in a Box" now available for order!

News from the Human Connectome Project (HCP) June 29, 2017 We are happy to announce that the HCP data release storefront has reopened, and that the 1200 Subjects Data Release is now available for purchase. This dataset is nearly 87 TB in total, and is being distributed on a set of twelve 8TB

Re: [HCP-Users] Behavioral performance data

Hi Kristina, Are you talking about the in-scanner performance data for the tfMRI tasks? Per run (RL or LR) in-scanner reaction time (RT) and accuracy (ACC) measures are available in each subject's tfMRI data in a {TASK}_Stats.csv file in the run specific task directory :

Re: [HCP-Users] Behavioral performance data

.@umn.edu> Sent: Thursday, June 29, 2017 9:18:03 AM To: Kristina Meyer Cc: hcp-users@humanconnectome.org; Elam, Jennifer; Burgess, Gregory Subject: Re: [HCP-Users] Behavioral performance data I wasn't involved in these specific experiments, but I THINK the info you're looking for i

Re: [HCP-Users] values from ROIs

Hi Serguei, Not sure this helps your question, but it looks like the rest of the thread ended up here: https://www.mail-archive.com/hcp-users@humanconnectome.org/msg04426.html CC'ing Tim Coalson so he can help you

Re: [HCP-Users] Task performance per single fMRI run (LR - RL)

Hi Joaquin and Enrico, The values in the behavioral .csv are averages across the two task runs. The per run (RL or LR) in-scanner reaction time and accuracy measures for each task for each subject are available in a {TASK}_Stats.csv file in the run specific task directory available with the

Re: [HCP-Users] automatic drawing of circles on a surface

Hi Vadim, You could also try creating foci at the coordinates of the electrodes in the wb_view GUI, which you could show as spheres like in the image you are trying to emulate. To create foci, click on "Foci" in the Mode section of the Toolbar and a set of Foci buttons will appear at the

Re: [HCP-Users] automatic drawing of circles on a surface

nnectome.org/> From: Vadim Axel <axel.va...@gmail.com> Sent: Wednesday, April 26, 2017 12:46:09 PM To: Elam, Jennifer Cc: Dierker, Donna; hcp-users@humanconnectome.org Subject: Re: [HCP-Users] automatic drawing of circles on a surface Nice feature, thanks Jenni

[HCP-Users] Last weeks to register for HCP Course 2017

It's not too late to register for the 2017 HCP Course: "Exploring the Human

Re: [HCP-Users] Download S1200 FIX (Extended) datasets

Hi Jingwei, Can you try your download again? We had a problem on our end that got resolved this morning. Let us know how it goes. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660

Re: [HCP-Users] scanner task performance data

Hi Catherine, The in scanner task performance data is available as part of the Behavioral data CSV (columns GA-KF) that can be downloaded off the subject dashboard when you click on "Explore Subjects" from the WU-Minn HCP 1200 Subjects section of the splash page, or from Quick Downloads when

Re: [HCP-Users] Downloading from the S3 browser

This thread might be helpful to you: http://www.mail-archive.com/hcp-users@humanconnectome.org/msg03097.html The data in Amazon S3 is not available in download packages as they are in ConnectomeDB. Instead data are organized in the directory structure as all the unzipped data unpacks for each

Re: [HCP-Users] Clarification request for data codes

Hi Brittany, Sorry for the confusion. The codes for the "Menstrual_CycleLength", Average length of participant's menstrual cycles in days data are 1=Less than 25 days, 2=Between 25-35 days, and 3=More than every 35 days. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome

Re: [HCP-Users] Coding of Tier 1 Data

Hi Judita, Sorry for the confusion in the data dictionary-- I added this information there. For "Menstrual_BirthControlCode" What birth control, progesterone, or fertility drugs is the participant using? 1=OC's for contraception, 2=OC's primarily for menstrual regulation, 3=estradiol for

[HCP-Users] Reminder to Register for HCP Course 2017

Only a few spaces remain for the 2017 HCP Course: "Exploring the Human Connectome". For more info and to register: https://store.humanconnectome.org/courses/2017/exploring-the-human-connectome.php Don't forget to also reserve your accommodation for the course by May 17, 2017 to be sure of

Re: [HCP-Users] Where are per-subject netmats?

Hi Tom, Due to size, we have the individual subject parcellations available in three separate downloads for different dimensionalities under the main PTN download on this page in the DB: https://db.humanconnectome.org/data/projects/HCP_1200 Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach,

Re: [HCP-Users] EPOC EMOTIV

Hi Hector, If you are talking about Connectome Workbench, you can get it here: https://www.humanconnectome.org/software/get-connectome-workbench.html Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of

Re: [HCP-Users] hcp publications

Hi Joelle, You can look here for a mostly up to date listing (especially of within consortium publications) of pubs that use HCP data or methods: https://wiki.humanconnectome.org/pages/viewpage.action?pageId=63504481

Re: [HCP-Users] HCP behavioral data "Noise_Comp" with -99

Avenue St. Louis, MO 63110 314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Jingwei Li <jingweili.sjtu@gmail.com> Sent: Thursday, September 14, 2017 10:25:04 PM To: Elam, J

Re: [HCP-Users] HCP behavioral data "Noise_Comp" with -99

Hi Jingwei, The issue you found is limited to the "Noise_Comp" variable, which is the NIH Toolbox Words in Noise (WIN) Computed score. NIH Toolbox changed the WIN test from v1 to v2 during the HCP data collection and only the v1 scores have been correctly released in ConnectomeDB. Those

Re: [HCP-Users] Transformation matrices for tractography

This earlier thread might be of use to you: https://www.mail-archive.com/hcp-users@humanconnectome.org/msg03768.html Best, Jenn Jennifer Elam,

Re: [HCP-Users] NEO-FFI Agreeableness scoring

Hi Josh, After a couple of spot checks, it appears that you might have indeed found a bug in the NEO Agreeableness scoring. Thanks for posting the problem to the list. We will pass the issue on to the developers and see if they can find the bug and correct their code for the scoring. The

Re: [HCP-Users] Details About Achenbach Adult Self Report (ASR) Subscales and Item Data

Hi Max, In order for us to give you access to the ASR item-level data, we must confirm that you and your PI (and any others with whom you might share the data, lab members, collaborators) have been approved for and agreed to the HCP Restricted data access use agreement. If you haven't applied

Re: [HCP-Users] Fail registering

Hi Alizee, Did you just sign up for a ConnectomeDB account and have you signed the Open Access data Use terms at db.humanconnectome.org? Sometimes those are the issues with logging into BALSA with your ConnectomeDB credentials. Are you trying to create a new BALSA account or a new ConnectomeDB

Re: [HCP-Users] Maximum values for cognitive scores

, MO 63110 314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: Ariana Cahn <ac...@ualberta.ca> Sent: Wednesday, August 30, 2017 4:22:59 PM To: hcp-users@humanconnectome.org; Elam, J

Re: [HCP-Users] delay discounting raw data

Hi Benjamin, We can make the raw delay discounting data available to you. I'll will respond to the request 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

Re: [HCP-Users] Recognition memory task details

//www.humanconnectome.org/> From: Evans, Dan <evans.2...@osu.edu> Sent: Friday, August 25, 2017 11:27:57 AM To: Elam, Jennifer; HCP-Users@humanconnectome.org Cc: Burgess, Gregory Subject: RE: Recognition memory task details I have been trying to find the E-prime download for the recognit

Re: [HCP-Users] Question about restricted data

ust 31, 2017 11:15:06 AM To: Elam, Jennifer Subject: Re: [HCP-Users] Question about restricted data Hi Jenn, Thanks for your quick reply. I want to run an analysis on a cohort that is as "normal" as possible and so I am screening out people who have had a history of drug

Re: [HCP-Users] Question about restricted data

Hi Claude, You can direct your questions to me. If we can stay sufficiently general about the scores I'll post the answer to the list for everyone's benefit. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of

Re: [HCP-Users] rfMRI data files

Hi Romuald, The phase encoding direction will affect areas of signal dropout in the images. This is discussed in the Smith et al. 2013 paper on Resting State fMRI in HCP, so you might start there. Best, Jenn Jennifer Elam, Ph.D. Scientific

Re: [HCP-Users] Fw: rfMRI data files

Hi Heracles, FAQ #3 on the HCP-Users FAQ might help you do what Matt is suggesting. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of

Re: [HCP-Users] Subjects with less than 1200 time points

Hi Reinder, We have not released notes on each case a scan was incomplete. Generally, scans were stopped early because the subject asked to end the scan due to comfort or anxiety issues. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University

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