FreeSurfer Course, September 25-28, 2017

Our awesome FreeSurfer shirts can be purchased here.

8:00 - 9:30am Registration Desk Open

* Indicates an optional technical talk. These talks have great content. They are related to, but not directly about, the FreeSurfer processing stream.
** Indicates an optional talk that covers basic/beginner material.
*** Indicates extra time to work on tutorials and/or ask questions about your own data.

Monday, September 25th - Introduction / Single Subject Analysis / ROI Analysis

Time

Title

Type

Lecturer

8:30 - 9:00

** Intro to Linux for FreeSurfer Users

talk/demo

Emma Boyd

9:00 - 9:15

** Intro to FreeSurfer Jargon

talk

Caroline Magnain

9:15 - 9:30

break

9:30 - 10:00

Introduction to Freesurfer

talk

Bruce Fischl

10:00 - 11:10

Analyzing the Individual Subject

talk

Doug Greve

11:10 - 11:30

break

11:30 - 11:45

Freeview demonstration

demo

Andrew Hoopes

11:45 - 12:15

Interaction with Individual Subject Data Tutorial

tutorial

staff

12:15 - 1:15

Lunch (Suggestions for where to eat)

--

--

1:15 - 1:30

Interaction with Individual Subject Data Tutorial

tutorial

staff

1:30 - 2:00

Surface-based Analysis: Intersubject Registration & Smoothing

talk

Lilla Zöllei

2:00 - 2:20

break

2:20 - 3:20

ROI Analysis

talk

Doug Greve

3:20 - 4:00

ROI Analysis Tutorial

tutorial

staff

4:00 - 4:30

Practice Working with Data

tutorial

staff

4:30 - 5:00

* Running FreeSurfer in the cloud with AWS batch

talk

Paul Wighton

Answers to online questions here

Tuesday, September 26th - Group Analysis / Longitudinal Analysis / Troubleshooting

Time

Title

Type

Lecturer

8:00 - 9:00

*** Optional time to work on tutorials / work on your own data / ask basic questions

--

Emma Boyd

9:00 - 9:50

Group Analysis

talk

Emily Lindemer

9:50 - 10:30

Group Analysis Tutorial

tutorial

staff

10:30 - 10:50

break

10:50 - 11:30

Multiple Comparisons

talk

Doug Greve

11:30 - 12:00

Multiple Comparisons Tutorial

tutorial

staff

12:00 - 1:00

Lunch

--

--

1:00 - 1:45

FreeSurfer Troubleshooting

talk

Bruce Fischl

1:45 - 2:45

Troubleshooting Tutorial

tutorial

staff

2:45 - 3:05

break

3:05 - 4:05

Quality Checking a Recon

demo

Allison Stevens

4:05 - 4:50

Longitudinal FreeSurfer see also: LongitudinalTutorial

talk

Lilla Zöllei

4:50 - 5:20

* An Overview of Registration Methods

talk

Lilla Zöllei

5:20 - 6:15

*** Optional time to work on tutorials / work on your own data / ask basic questions

--

Emma Boyd

6:30 - ?

Boston Beer Works

social activity

you!

Answers to online questions here

Boston Beer Works location information here and here.
Meet us in front of Building 149 to catch the 6:30pm shuttle bus (it leaves on time!).
If you miss us, we are taking the MGH/Navy Yard shuttle to North Station. From there, cross the street to get to Canal Street.
Boston Beer Works will be down that street, on your right. (Shuttles depart every 15 minutes up until 7:15pm and every half hour after that).

Wednesday, September 27th - Multimodal Analysis / Diffusion Analysis / fMRI Analysis / MR Acquisition

Time

Title

Type

Lecturer

8:00 - 8:30

*** Optional time to work on tutorials / work on your own data / ask basic questions

--

Emma Boyd

8:30 - 9:00

** A Non-physicist's Intro to MR (SpinBench)

talk

Robert Frost

9:00 - 9:30

Multi-Modal Integration, Part 1: Registration

talk

Lilla Zöllei

9:30 - 10:00

Multi-Modal Integration Tutorial, Part 1

tutorial

staff

10:00 - 10:15

** A Non-Physicist's Intro to Diffusion MRI Physics

talk

Robert Frost

10:15 - 10:35

break

10:35 - 11:15

Introduction to Diffusion MRI

talk

Anastasia Yendiki

11:15 - 12:00

Diffusion Processing Tutorial

tutorial

staff

12:00 - 1:00

Lunch

--

--

1:00 - 1:50

TRActs Constrained by UnderLying Anatomy (TRACULA)

talk

Anastasia Yendiki

1:50 - 2:50

Tracula Tutorial

tutorial

staff

2:50 - 3:00

Longitudinal TRACULA

talk

Anastasia Yendiki

3:00 - 3:20

break

3:20 - 4:20

Basics of fMRI Analysis

talk

Isik Karahanoglu

4:20 - 5:20

*** Optional time to work on LongitudinalTutorial

tutorial

staff

Answers to online questions here

Thursday, September 28th - fMRI Analysis / Multimodal Analysis / Future Directions

Time

Title

Type

Lecturer

8:00 - 9:00

*** Optional time to work on tutorials / work on your own data / ask basic questions

--

Emma Boyd

9:00 - 9:30

FSFAST, Part 1: Preprocessing

talk

Doug Greve

9:30 - 10:00

FSFAST Tutorial, Part 1

tutorial

staff

10:00 - 10:20

break & Evaluation

10:20 - 11:20

FSFAST, Part 2: GLM Analysis

talk

Doug Greve

11:20 - 12:00

FSFAST Tutorial, Part 2

tutorial

staff

12:00 - 1:00

Lunch

--

--

1:00 - 1:30

Multi-Modal Integration, Part 2: Group Analysis

talk

Doug Greve

1:30 - 2:15

Multi-Modal Integration Tutorial, Part 2

tutorial

staff

2:15 - 2:45

Resting State fMRI

talk

Doug Greve

2:45 - 3:00

FreeSurfer vs. VBM

talk

Doug Greve

3:00 - 3:15

break

3:15 - 3:45

* MRI Acquisition Methods

talk

André van der Kouwe

3:45 - 4:30

Future Directions

talk

Bruce Fischl

4:30 - 5:00

Question & Answer Session

--

staff

Answers to online questions here

* Indicates an optional technical talk. These talks have great content. They are related to, but not directly about, the FreeSurfer processing stream.
** Indicates an optional talk covering basic/beginner material.