NIH Blueprint: The Human Connectome Project

Exploring the Human Connectome

HCP Course Practical Data and Software

The 2016 HCP Course Practical Data and Software will be available as a preconfigured Virtual Machine (VM) that includes all necessary software.

The download requires user verification through ConnectomeDB as they contain HCP data covered under the HCP Open Access Data Use Terms. The download also requires the Aspera Connect plugin. Practical instructions have been written to work with the preconfigured VM.

You will need at least 1TB of free disk space for downloading/extracting the data. The Practical Data are very large (~350 GB) and are downloaded as a compressed archive.

Expect downloads to take many hours to complete, even using the Aspera plugin.

Download Course VM
~350 GB compressed archive

Available Early 2017

Course Schedule

Day 1: Sunday, Aug 28

TypeCourse (Presenter)Resources
WelcomeIntro and Overview (David Van Essen)PDF: https://wustl.box.com/s/0edcj787ye9c2idc2ir95b766w8r3pqz
LectureHCP Data Acquisition (Michael Harms)PDF: https://wustl.box.com/s/sp4bcf9wjaao6lj3ysmlh495rjds9qsv
PracticalIntroduction to wb_view (Jenn Elam)PDF: https://wustl.box.com/s/ndirdpom847h0f0ozrqleibxv9w4ssdw
LectureStructural MRI: Precise Neuroanatomical Localization (Matt Glasser)PDF: https://wustl.box.com/s/d8rrs4cyhbbuoptvjywe1uqhpn3kd9fv
LectureData Quality (Michael Harms)PDF: https://wustl.box.com/s/72nudch8z8bponfmyvfaxj0421zc18fo
PracticalData Quality (Michael Harms)PDF: https://wustl.box.com/s/0gpam933mvrstcoitm3yfl4p26n85gl2
LectureGroup Brain Parcellation (Matt Glasser)PDF: https://wustl.box.com/s/eyot0msmq58kpaod785z3qqhgejk3oif
PracticalIntroduction to wb_command and Group Parcellation (Tim Coalson, Jenn Elam)PDF: https://wustl.box.com/s/k4ptm6mrxar1nlfwhzarmihsv5qwd970

Day 2: Monday, Aug 29

TypeCourse (Presenter)Resources
LectureMultimodal Classification of Areas in Individuals and Parcellation Validation (Matt Glasser)PDF: https://wustl.box.com/s/i2mxsxjt6ac9d5xuqjct49hjnve75ck5
PracticalIndividual Brain Parcellation (Matt Glasser)PDF: https://wustl.box.com/s/0ln9dtwouzhqxkuw5nh7x3bnr5tlsnjh
LecturerfMRI background, Preprocessing, Denoising (Steve Smith)PDF: https://wustl.box.com/s/4mo9frrozy5oprsdah7jecfvplkm3wiq
LecturerfMRI Temporal Noise (Steve Smith, Matt Glasser)PDF: https://wustl.box.com/s/jbqr6k3oy4o92nxa62vonk0nhglce2ue
PracticalrfMRI Preprocessing, Denoising; ICA-based Parcellations (Steve Smith)PDF: https://wustl.box.com/s/xl5oq5pvtg0v1jd719uygw4xdzp31y9t
LecturerfMRI Network Analysis Strategies (Steve Smith)PDF: https://wustl.box.com/s/kxzlemlbosyn75pn61cpbxgbcypv49zn
PracticalrfMRI Netmats and Dual Regression (Steve Smith)PDF: https://wustl.box.com/s/se8fwaocighr3libgerd9uh34xvywtd6

Day 3: Tuesday, Aug 30

TypeCourse (Presenter)Resources
LectureHCP Pipelines (Tim Brown)PDF: https://wustl.box.com/s/9ds0jaxliwebeoxqdvxel86x7g6z4sul
PracticalHCP Pipelines Practical (Tim Brown)PDF: https://wustl.box.com/s/4u30jlz6cmsekpw2sxbcfq0wc33nze37
LectureRegression, Prediction, and Permutation Analyses (Thomas Nichols, Anderson Winkler)PDF: https://wustl.box.com/s/z8ienimugue86kvans6ks421v9ycmay2
LectureFamily Structure and Heritability (Thomas Nichols)PDF: https://wustl.box.com/s/lsab6irc5k2q1jrgrp0beiuo67v0y4hw
LectureTask fMRI and Behavioral Measure Analyses (Greg Burgess)PDF: https://wustl.box.com/s/tbkv3u299zqupgsgzk402waqo3nw83ah
PracticaltfMRI and PALM (Greg Burgess, Anderson Winkler)PDF: https://wustl.box.com/s/0xqeqhf84fuenmykjdfxbrydawpryn6v
LectureHCP Informatics (Daniel Marcus)PDF: https://wustl.box.com/s/9xmofvj0nyjox7xp136j9joes1hbhn96
LectureUnderstanding the Clinical Connectome: Application of HCP Methods to Neuropsychiatric Illness (Alan Anticevic)PDF: https://wustl.box.com/s/kfvzywxr9pt4dqerc4i3bqep6oluzsqu

Day 4: Wednesday, Aug 31

TypeCourse (Presenter)Resources
LectureDiffusion MRI, Distortion Correction and DTI (Jesper Andersson)PDF: https://wustl.box.com/s/lpor0s3vt2qwaghwfaj4ed6hr8lwhnqu
PracticalDiffusion MRI, Distortion Correction and DTI Practical (Jesper Andersson)PDF: https://wustl.box.com/s/2m0ix0zkia16vb7a58agidiufq6g4ag6
LectureFibre Orientation Models and Tractoghraphy Analysis (Michiel Cottar)PDF: https://wustl.box.com/s/pzbdltem3jxjs0uxhz51p3mfpd9csdt5
PracticalFibre Orientation Models and Tractography Analysis Practical (Michiel Cottar)PDF: https://wustl.box.com/s/35m28use7mv9lsdt3ixbqx4zp0fi4sgm
PracticalTractography and Tracer (Chad Donahue)PDF: https://wustl.box.com/s/ovp9ev6h2wcsykc2kni4x9rshaet6fuq
LectureCloud-based Processing (Daniel Marcus)PDF: https://wustl.box.com/s/f08yp2k1o4ijyocpw1h4c9xlknhq2t07
PracticalCloud-based Processing Using HCP Pipelines and Amazon Web Services (Tim Brown)PDF: https://wustl.box.com/s/xocq331xo761pnmj8kkbohwo21t6cchv

Day 5: Thursday, Sep 1

TypeCourse (Presenter)Resources
LectureIntroduction to HCP-MEG Connectome (Linda Larson-Prior)PDF: https://wustl.box.com/s/baxn8g12s0qi0h9ju84typyocnk36u1x
PracticalMEG Preprocessing, Channel and Source Analysis of tMEG and rMEG (Giorgios Michalareas, Franceso di Pompeo)PDF: https://wustl.box.com/s/1i5jhm94y9lsl9hby46085j3qbtajozy
LectureMEG Connectivity and Follow-up Analyses for HCP MEG Data and Other Software Tools (Robert Oostenveld)PDF: https://wustl.box.com/s/8ijsz9gahqf4g21cm0yrp2x98va4cn4v
PracticalrMEG and tMEG Source-level Connectivity; Multimodal Integration (Giorgios Michalareas, Franceso di Pompeo)PDF: https://wustl.box.com/s/39h0dcq63g7qy9erx4s2nk3e52nmiqw8
PracticalBuilding wb_view scenes and sharing on BALSA (Jenn Elam)PDF: https://wustl.box.com/s/6nv4ezqrcpsj86vtyx1ttotdet9p6yb3
LectureHCP and Beyond: Looking Back and Forward (David Van Essen)PDF: https://wustl.box.com/s/0tc4qef30czwhbc7tgh10qeisw7rj51m

Course Description

On This Page:

Learn about multi-modal neuroimaging data, analysis, and visualization tools of the Human Connectome Project

We are pleased to announce the 2016 HCP Course: "Exploring the Human Connectome", to be held Aug 28 – Sep 1 at the Joseph S Martin Conference Center at Harvard Medical Center, in Boston, Massachusets, USA.

This course is designed for investigators who are interested in:

  • using data being collected and distributed by HCP
  • acquiring and analyzing HCP-style imaging and behavioral data at your own institution
  • processing your own non-HCP data using HCP pipelines and methods
  • learning to use Connectome Workbench tools and the CIFTI connectivity data format
  • learning HCP multi-modal neuroimaging analysis methods, including those that combine MEG and MRI data
  • positioning yourself to capitalize on HCP-style data from forthcoming large-scale projects (e.g., Lifespan HCP and Connectomes Related to Human Disease)

This 5-day intensive course will provide training in the acquisition, analysis and visualization of freely-available data from the Human Connectome Project using methods and informatics tools developed by the WU-Minn HCP consortium. Participants will learn how to acquire, analyze, visualize, and interpret data from four major MR modalities (structural MR, resting-state fMRI, diffusion imaging, task-evoked fMRI) plus magnetoencephalography (MEG) and extensive behavioral data.  Lectures and labs will provide grounding in neurobiological as well as methodological issues involved in interpreting multimodal data, and will span the range from single-voxel/vertex to brain network analysis approaches. 

The course is open to graduate students, postdocs, faculty, and industry participants.  The course is aimed at both new and current users of HCP data, methods, and tools, and will cover both basic and advanced topics. Prior experience in human neuroimaging or in computational analysis of brain networks is desirable, preferably including familiarity with FSL and Freesurfer software.  

All lectures and printed material will be in English.

Faculty

Speakers: David Van Essen, Matt Glasser, Michael Harms, Steve Smith, Tom Nichols, Anderson Winkler, Greg Burgess, Dan Marcus, Alan Anticevic, Jesper Andersson, Michiel Cottaar, Chad Donahue, Robert Oostenveld, Linda Larson-Prior

Practical Tutors: (in addition to speakers): Jenn Elam, Gordon Xu, Tim Brown, Tim Coalson, Giorgos Michalareas, Francesco Di Pompeo

Contact Information

If you have any questions, please contact us at: hcpcourse@humanconnectome.org

We look forward to seeing you in Bah-ston!