NIH Blueprint: The Human Connectome Project

Exploring the Human Connectome

HCP Course Practical Data and Software

The 2018 HCP Course Practical Data and Software is available as a preconfigured Virtual Machine (VM) that includes all necessary software. Practical instructions have been written to work with the preconfigured VM.

You will need VMware software and at least 1TB of free disk space for downloading/extracting the data.

Expect the download to take many hours to a few days to complete, depending on network speed.

Download Course VM
~300 GB compressed archive

Course Schedule

Day 1: Monday, Jun 25

TypeCourse (Presenter)Resources
LectureIntro and Overview (David Van Essen)PDF: https://wustl.box.com/s/m4ai7fsgvs3im8rp7oy539kp75ubr395
LectureHCP Data Acquisition (Michael Harms)PDF: https://wustl.box.com/s/uif4k629eub2c7xf77hfwlhgals5xwoe
LectureStructural MRI: Precise Neuroanatomical Localization (Matt Glasser)PDF: https://wustl.box.com/s/jfajt9jfw0br17n4l05wsklk6n63p17a
PracticalIntroduction to wb_view (Jenn Elam)PDF: https://wustl.box.com/s/baq0i7xeqe9qblzfyrd3xo6ifawv8j58
PracticalData Quality (Michael Harms) Lecture PDF: https://wustl.box.com/s/krekn5svmg4rgig2ossqqhuhcbrgg8c6
Practical PDF: https://wustl.box.com/s/2aju7zxxh7ed3nets2efos64buflxlqs
LectureGroup Brain Parcellation (Matt Glasser)PDF: https://wustl.box.com/s/k7hf1bv3vaaav04ge3hdhvlh92ikvwok
PracticalIntroduction to wb_command and Group Parcellation (Tim Coalson, Jenn Elam)PDF: https://wustl.box.com/s/dhzvm7chueuavgv3ch5iqm5pu5xy1dd9

Day 2: Tuesday, Jun 26

TypeCourse (Presenter)Resources
LectureMultimodal Classification of Areas in Individuals and Parcellation Validation (Matt Glasser)PDF: https://wustl.box.com/s/tfhu8rnsxm9xppfqkzkspxgq0t47e4bp
PracticalIndividual Brain Parcellation (Matt Glasser, Jenn Elam)PDF: https://wustl.box.com/s/2uwrsb36ewzdt4u9rrlpntbn7c0m0fjx
LecturerfMRI Background, Preprocessing, Denoising (Steve Smith)PDF: https://wustl.box.com/s/pzh0247sxrvv2o25bokub2m1u5uhoh2x
LecturerfMRI Temporal Noise (Matt Glasser)PDF: https://wustl.box.com/s/n90b8cut123dxgy76djzspkvcz35hn3n
PracticalrfMRI Preprocessing, Denoising; ICA-based Parcellations (Steve Smith, Jenn Elam)PDF: https://wustl.box.com/s/xfs2506iz6pa6t7bfhhkno3baphnppvy
LecturerfMRI Network Analysis Strategies (Steve Smith)PDF: https://wustl.box.com/s/g8x1ke7ftprd4v1s37zuy1ya9e5djnqp
PracticalrfMRI Netmats and Dual Regression (Steve Smith)PDF: https://wustl.box.com/s/7lk2wwoklrqkusn4gm45ainzitmdsod7

Day 3: Wednesday, Jun 27

TypeCourse (Presenter)Resources
PracticalHCP Pipelines Practical (Tim Brown)PDF: https://wustl.box.com/s/4ybn3bjd0v8idzz9ljxekvdgetdz3zsg
LectureDiffusion MRI, Distortion Correction and DTI (Jesper Andersson)PDF: https://wustl.box.com/s/60lk5jmxl6m78l7dusrmpiyjja4nssgi
PracticalDiffusion MRI, Distortion Correction and DTI Practical (Jesper Andersson)PDF: https://wustl.box.com/s/6aox0ugssgnsn4lquizfgb5w06eyz8s2
LectureFibre Orientation Models and Tractography Analysis (Matteo Bastiani)PDF: https://wustl.box.com/s/7xpu63yof3s68oicwulwh9d5nhvuq8en
PracticalFibre Orientation Models and Tractography Analysis Practical (Matteo Bastiani)PDF: https://wustl.box.com/s/wna2cu94pqgt8zskg687mj8zlmfj1pq7
PracticalTractography and Tracer Connectivity (Chad Donahue)PDF: https://wustl.box.com/s/qr9f53xd1kedr03ozcxjj8fjh15mopac

Day 4: Thursday, Jun 28

TypeCourse (Presenter)Resources
LectureRegression, Prediction, and Permutation Analyses (Thomas Nichols)PDF: https://wustl.box.com/s/ivtho1n8e29vrbvdpqsrxr7n1elhqbyh
LectureFamily Structure and Heritability (Thomas Nichols)PDF: https://wustl.box.com/s/seqjz60pxhtk5nquvgqxptm8uw6tu1v1
LectureTask fMRI and Behavioral Measure Analyses (Greg Burgess)PDF: https://wustl.box.com/s/mtei9cdimm66fcbl5vxqp107kfe1vlmo
PracticaltfMRI and PALM (Greg Burgess, Anderson Winkler)PDF: https://wustl.box.com/s/3b98a4mvgcwq0z0fhh4olvcqow1l5z95
LectureLifespan HCP: Development and Aging (Leah Somerville)PDF: https://wustl.box.com/s/1rxtybpup28xssm40mha1pbvo367va5w
LectureHCP Informatics: Using ConnectomeDB and Amazon Web Services (Dan Marcus, Tim Brown)PDF: https://wustl.box.com/s/cil1bnp62jooxw0g39fmjwdjuhk7mtci
LectureCloud-based Processing Using HCP Pipelines and Amazon Web Services (Tim Brown)PDF: https://wustl.box.com/s/cfhi0991kocgyi5isdrf0nm41otj91wc

Day 5: Friday, Jun 29

TypeCourse (Presenter)Resources
LectureIntroduction to HCP-MEG Connectome (Linda Larson-Prior)PDF: https://wustl.box.com/s/6u5wjv1km6ernoow5p0saaskyxlyox1t
PracticalMEG Preprocessing, Channel and Source Analysis of tMEG and rMEG (Jan-Mathijs Schoffelen)PDF: https://wustl.box.com/s/64afagzqmbr1gsosl3u7lca3beg70ksa
LectureMEG Connectivity and Follow-up Analyses for HCP Data (Robert Oostenveld)PDF: https://wustl.box.com/s/pi52p3grauc5t6qyps3t6gextsbft3om
PracticalrMEG and tMEG Source-level Connectivity; Multimodal Integration (Jan-Mathijs Schoffelen)PDF: https://wustl.box.com/s/q5mx6e95oe3ptimljfkgdzzcakmvf5m4
LectureClinical Connectome: Application of HCP Methods to Neuropsychiatric Illness (Alan Anticevic)PDF: https://wustl.box.com/s/7q7gwq0km3tax29y6wmvvbmu5g4hmau2
PracticalBuilding wb_view scenes and sharing on BALSA (Jenn Elam, Chad Donahue)PDF: https://wustl.box.com/s/r2livfxpsyfx9gxq9jloei6cbuywsm03
LectureHCP and Beyond: Looking Back and Forward (David Van Essen)PDF: https://wustl.box.com/s/gvf67ezlze16k1yrcggyx0lhvdht1vur

Course Description

On This Page:

Blavatnik Center

Learn about multimodal neuroimaging data, analysis, visualization, and sharing tools of the Human Connectome Project

We are pleased to announce the 2018 HCP Course: "Exploring the Human Connectome", to be held June 25 – 29, 2018 at the Blavatnik School of Government, at the University of Oxford, in Oxford, UK

This course is designed for investigators who are interested in:

  • using HCP-style data distributed by the Connectome Coordinating Facility (CCF) from the young adult (original) HCP and forthcoming projects
  • 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 share data using the BALSA imaging database
  • learning HCP multi-modal neuroimaging analysis methods, including those that combine MEG and MRI data
  • positioning yourself to capitalize on HCP-style data forthcoming from large-scale projects currently collecting data (e.g., Lifespan HCP development and aging and Connectomes Related to Human Disease projects)

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-Oxford 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 computer-based practicals 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.

To get a sense of the material covered, check out the 2016 and 2017 course materials (lecture slide PDFs, practical instructions, software and practical datasets in a virtual machine) currently available for download. Each year the course is updated with the latest developments and analysis recommendations from HCP.

Registration & Accommodation Information

Registration (in US dollars) is $800 for PhD/MSc/undergrad students, $1300 for postdocs and other non-student attendees, and $2400 for commercial attendees.

Course registration includes lectures, computer practical sessions, coffee/tea breaks each day, an evening kickoff reception, and a course book containing the lecture slides and practical instructions.

Spaces are limited, registration will remain open until all spaces are filled. If registration fills, we will open a waiting list for those interested in being contacted if there are cancellations.

The Registration Only fee does not include accommodation (see below), or meals; there are many cafés and restaurants nearby in Oxford city.

To register and pay, visit the on-line registration page. Please note that we are only able to take payment by credit card (sorry about this). Please note that your registration is not complete until you have finalized the payment (entering form information and then proceed to checkout and payment).

If you require an invitation letter as part of a travel visa application, please download this letter and fill in your contact information.

Worcester dorm room

Typical Worcester dorm room

New This Year: Registration With Accommodation

Due to the high cost and limited availability of accommodation in Oxford during the week of the course, we are offering a limited number of registrations with 6 nights of bed & breakfast accommodation (Sun June 24 – Fri June 29, 2018, check out Sat June 30), taxes included, for $675 additional. The rooms are single dormitory-style rooms with a private en suite bathroom at Worcester College, a short 5-10 minute walk from the course venue.

Registration with Accommodation at Worcester (in US Dollars) is $1475 for PhD/MSc/undergrad students, $1975 for postdocs and other non-student attendees, and $3075 for commercial attendees.

Note: Accommodation is generally expensive and in high demand in Oxford at the end of June. We recommend booking your lodging as soon as possible!

Other Accommodations Options

  • St. Edmund Hall (15-20 min walk from Blavatnik School): 18 standard single rooms with shared bath facilities, breakfast and taxes included for £48/night (~$70 USD), are being held for HCP Course Attendees for the nights Sun June 24 – Fri June 29, 2018. Contact Susan McCarthy, for more information and to make a reservation: susan.mccarthy@seh.ox.ac.uk
  • Other dormitory-style options: www.oxfordrooms.co.uk allows searching for other dormitory-style rooms around Oxford.
  • AirBnB / Sublet options: oxfordapartment.co.uk is a short term apartment rental site.

Faculty

Speakers to include: David Van Essen, Matt Glasser, Michael Harms, Steve Smith, Tom Nichols, Timothy Brown, Jesper Andersson, Matteo Bastiani, Chad Donahue, Greg Burgess, Leah Somerville, Alan Anticevic, Linda Larson-Prior and Robert Oostenveld.

Practical Tutors: (in addition to speakers): Jenn Elam, Tim Coalson, Anderson Winkler, and Jan-Mathijs Schoffelen

Cancellation Policy

Please register with care. We have made commitments on costs that cannot be changed the closer we approach to the course date. Here is our refund policy:

  • Full refunds available on registration cancellations up to May 18, 2018
  • 50% refunds available on registration cancellations from May 19 to May 31, 2018
  • No refunds of any kind for any cancellation on June 1, 2018 or beyond

Contact Information

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

We look forward to seeing you in Oxford!