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## page was renamed from FsTutorial/Spring2019CourseSchedule ## Please edit system and help pages ONLY in the master wiki! ## For more information, please see MoinMoin:MoinDev/Translation. ## IMPORTANT NOTE: ## When you use this page as a template for creating your project page: ## * please remove all lines starting with two hashes (##) ## * except the acl line, please keep that, but remove one hash, so it reads #acl ... ## * fix the acl line so it has the correct page instead of the sample Project/...Group ##acl Project/AdminGroup:admin,read,write,delete,revert Project/ReadWriteGroup:read,write Project/ReadGroup:read ##master-page:Unknown-Page ##master-date:Unknown-Date #format wiki #language en == Fall 2019 FreeSurfer Course: September 23rd - 26th == === 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. <<BR>> ** Indicates an optional talk that covers basic/beginner material. <<BR>> *** Indicates optional extra time to work on tutorials and/or ask questions about your own data. ==== Monday, April 1st - Introduction / Single Subject Analysis / ROI Analysis ==== ||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' || ||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/Unix_MF.pptx|Intro to Linux for FreeSurfer Users]] ||talk/demo || Andrew Hoopes|| ||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon_clean.pptx|Intro to FreeSurfer Jargon]] ||talk || Caroline Magnain || ||9:15 - 9:30 ||'''break''' || || || ||9:30 - 10:15 ||[[attachment:freesurfer.intro.apr.2019.ppt|Introduction to Freesurfer]] ||talk ||Bruce Fischl || ||10:15 - 11:25 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.pptx|Analyzing the Individual Subject]] ||talk ||Doug Greve || ||11:25 - 11:45 ||'''break''' || || || ||11:45 - 12:00 ||[[https://www.youtube.com/watch?v=Mv-ECowxq2o|Freeview demonstration]] ||[[FsTutorial/FreeviewDemo|demo]] || Bram Diamond || ||12:00 - 12:30 ||[[FsTutorial/OutputData_freeview|Introduction to FreeSurfer Output]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] || ||12:30 - 1:30 ||'''Lunch''' [[https://surfer.nmr.mgh.harvard.edu/fswiki/CourseDescription?action=AttachFile&do=get&target=CourseMap.jpg|(Suggestions for where to eat)]] ||-- ||-- || ||1:30 - 1:45 ||[[FsTutorial/OutputData_freeview|Introduction to FreeSurfer Output]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] || ||1:45 - 2:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.surface-based-analysis.ppt |Surface-based Analysis: Intersubject Registration & Smoothing]] ||talk || Iman Aganj || ||2:15 - 2:35 ||'''break''' || || || ||2:35 - 3:05 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.EB_wiki.pptx|ROI Analysis]] ||talk || || ||3:05 - 3:50 ||[[FsTutorial/AnatomicalROIV6.0|ROI Analysis Tutorial]] ||tutorial ||staff || ||3:50 - 4:20 || [[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer-struct-func04022018-handoutb.pdf| Structural & Functional Data Integration]] ||talk ||David Salat || ||4:20 - 4:50 ||[[FsTutorial/Practice|Practice Working with Data]] ||tutorial ||staff || Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]] ==== Tuesday, April 2nd - Group Analysis / Longitudinal Analysis / Troubleshooting ==== ||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' || ||8:00 - 9:00 ||*** Optional session, extra support for structural processing and ROI analysis||-- || Research Techs || ||9:00 - 9:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/GLM.pptx|Group Analysis]] ||talk || Viviana Siless || ||9:50 - 10:30 ||[[FsTutorial/GroupAnalysisV6.0|Group Analysis Tutorial]] ||tutorial ||staff || ||10:30 - 10:50 ||'''break''' || || || ||10:50 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/multiplecomparisons.ppt|Multiple Comparisons]] ||talk ||Doug Greve || ||11:30 - 12:00 ||[[FsTutorial/MultipleComparisonsV6.0Perm|Multiple Comparisons Tutorial]] ||tutorial ||staff || ||12:00 - 1:00 ||'''Lunch''' ||-- ||-- || ||1:00 - 1:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.troubleshooting.apr2019.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl || ||1:45 - 2:45 ||[[FsTutorial/TroubleshootingDataV6.0|Troubleshooting Tutorial]] ||tutorial ||staff || ||2:45 - 3:05 ||'''break''' || || || ||3:05 - 4:05 ||[[https://youtu.be/AR83_Bt04VQ|Quality Checking a Recon]] ||demo ||Leah Morgan, Allison Stevens|| ||4:05 - 4:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.longitudinal.pptx|Longitudinal FreeSurfer]] ||talk || Malte Hoffmann || ||4:50 - 5:30 || [[FsTutorial/LongitudinalTutorial|LongitudinalTutorial]] ||tutorial ||staff || ##||5:30 - 6:15 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || staff|| ||5:30 - 7:30 ||Social Night in the atrium of Bldg. 149|| Snacks and Beverages Served ||you! || Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]] ==== Wednesday, April 3rd - Multimodal Analysis / Diffusion Analysis / fMRI Analysis / MR Acquisition ==== ||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' || ||8:00 - 9:00 ||*** Optional session, extra support for questions on longitudinal processing and working with pediatric data ||-- ||Lilla Zöllei, other staff|| ||9:00 - 9:30 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/IntroMRI.apr2019.pptx|Intro to MR]] ([[http://www.heartvista.com/SpinBench|SpinBench]])'' '' ||talk ||Robert Frost || ||9:30 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal1_2018.pptx|Multi-Modal Integration, Part 1: Registration]] ||talk || Aina Frau-Pascual|| ||10:00 - 10:30 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial, Part 1]] ||tutorial ||staff || ||10:30 - 10:50 ||'''break''' || || || ||10:50 - 11:05 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/IntroDiffusion.apr2019.pptx|Intro to Diffusion MRI Physics]] '' '' ||talk ||Robert Frost || ||11:05 - 11:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki || ||11:45 - 12:30 ||[[FsTutorial/DiffusionV6.0|Diffusion Processing Tutorial]] ||tutorial ||staff || ||12:30 - 1:30 ||'''Lunch''' ||-- ||-- || ||1:30 - 2:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|TRActs Constrained by UnderLying Anatomy (TRACULA)]] ||talk ||Anastasia Yendiki || ||2:20 - 3:20 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff || ||3:20 - 3:40 ||'''break''' || || || ||3:40 - 3:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|Longitudinal TRACULA]] ||talk ||Anastasia Yendiki || ||3:50 - 4:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fMRI_intro2018.ppt|Basics of fMRI Analysis]] ||talk ||Jingyuan Chen || ||4:50 - 5:30 ||* [[attachment:fs-cloud-prsentation_20190403.pdf|Running FreeSurfer in the cloud with AWS batch]] || talk || Paul Wighton|| Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]] '''The !FreeSurfer Evaluation is [[ https://forms.gle/HmxDSXMopTdNMJKu7|here]]!''' ==== Thursday, April 4th - fMRI Analysis / Multimodal Analysis / Future Directions ==== ||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' || ||8:00 - 9:00 ||*** Optional session, extra support for fMRI and Diffusion Questions ||-- ||staff|| ||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.ppt|FSFAST, Part 1: Preprocessing]] ||talk ||Doug Greve || ||9:30 - 10:00 ||[[FsFastTutorialV6.0|FSFAST Tutorial, Part 1]] ||tutorial ||staff || ||10:00 - 10:20 ||'''break''' & Evaluation || || || ||10:20 - 11:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.ppt|FSFAST, Part 2: GLM Analysis]] ||talk || Doug Greve || ||11:20 - 12:00 ||[[FsFastTutorialV6.0|FSFAST Tutorial, Part 2]] ||tutorial || staff || ||12:00 - 1:00 ||'''Lunch''' ||-- ||-- || ||1:00 - 1:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|* An Overview of Registration Methods]] ||talk || Lilla Zöllei || ||1:30 - 1:45 || [[http://surfer.nmr.mgh.harvard.edu/pub/docs/resting-state.fmri.ppt|Resting State fMRI]] ||talk ||Doug Greve || ||1:45 - 2:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.pptx|Multi-Modal Integration, Part 2: Group Analysis]] ||talk ||Doug Greve || ||2:15 - 3:00 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial, Part 2]] ||tutorial ||staff || ||3:00 - 3:15 ||'''break''' || || || ||3:15 - 3:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.vbm.ppt|FreeSurfer vs. VBM]] ||talk ||Doug Greve || ||3:30 - 4:30 ||Future Directions ||talk || FS Development Team || ||4:30 - 5:00 ||Question & Answer Session ||-- ||staff || ##||3:15 - 3:45 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||André van der Kouwe || Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]] <<BR>> '''!FreeSurfer Merchandise''' Enjoyed our course? Purchase our awesome !FreeSurfer T-shirts [[https://freesurfer.threadless.com|here]]. |
Fall 2019 FreeSurfer Course: September 23rd - 26th
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 optional extra time to work on tutorials and/or ask questions about your own data.
Monday, April 1st - Introduction / Single Subject Analysis / ROI Analysis
Time |
Title |
Type |
Lecturer |
8:30 - 9:00 |
talk/demo |
Andrew Hoopes |
|
9:00 - 9:15 |
talk |
Caroline Magnain |
|
9:15 - 9:30 |
break |
|
|
9:30 - 10:15 |
talk |
Bruce Fischl |
|
10:15 - 11:25 |
talk |
Doug Greve |
|
11:25 - 11:45 |
break |
|
|
11:45 - 12:00 |
Bram Diamond |
||
12:00 - 12:30 |
tutorial |
||
12:30 - 1:30 |
-- |
-- |
|
1:30 - 1:45 |
tutorial |
||
1:45 - 2:15 |
Surface-based Analysis: Intersubject Registration & Smoothing |
talk |
Iman Aganj |
2:15 - 2:35 |
break |
|
|
2:35 - 3:05 |
talk |
|
|
3:05 - 3:50 |
tutorial |
staff |
|
3:50 - 4:20 |
talk |
David Salat |
|
4:20 - 4:50 |
tutorial |
staff |
Answers to online questions here
Tuesday, April 2nd - Group Analysis / Longitudinal Analysis / Troubleshooting
Time |
Title |
Type |
Lecturer |
8:00 - 9:00 |
*** Optional session, extra support for structural processing and ROI analysis |
-- |
Research Techs |
9:00 - 9:50 |
talk |
Viviana Siless |
|
9:50 - 10:30 |
tutorial |
staff |
|
10:30 - 10:50 |
break |
|
|
10:50 - 11:30 |
talk |
Doug Greve |
|
11:30 - 12:00 |
tutorial |
staff |
|
12:00 - 1:00 |
Lunch |
-- |
-- |
1:00 - 1:45 |
talk |
Bruce Fischl |
|
1:45 - 2:45 |
tutorial |
staff |
|
2:45 - 3:05 |
break |
|
|
3:05 - 4:05 |
demo |
Leah Morgan, Allison Stevens |
|
4:05 - 4:50 |
talk |
Malte Hoffmann |
|
4:50 - 5:30 |
tutorial |
staff |
|
5:30 - 7:30 |
Social Night in the atrium of Bldg. 149 |
Snacks and Beverages Served |
you! |
Answers to online questions here
Wednesday, April 3rd - Multimodal Analysis / Diffusion Analysis / fMRI Analysis / MR Acquisition
Time |
Title |
Type |
Lecturer |
8:00 - 9:00 |
*** Optional session, extra support for questions on longitudinal processing and working with pediatric data |
-- |
Lilla Zöllei, other staff |
9:00 - 9:30 |
** Intro to MR (SpinBench) |
talk |
Robert Frost |
9:30 - 10:00 |
talk |
Aina Frau-Pascual |
|
10:00 - 10:30 |
tutorial |
staff |
|
10:30 - 10:50 |
break |
|
|
10:50 - 11:05 |
talk |
Robert Frost |
|
11:05 - 11:45 |
talk |
Anastasia Yendiki |
|
11:45 - 12:30 |
tutorial |
staff |
|
12:30 - 1:30 |
Lunch |
-- |
-- |
1:30 - 2:20 |
talk |
Anastasia Yendiki |
|
2:20 - 3:20 |
tutorial |
staff |
|
3:20 - 3:40 |
break |
|
|
3:40 - 3:50 |
talk |
Anastasia Yendiki |
|
3:50 - 4:50 |
talk |
Jingyuan Chen |
|
4:50 - 5:30 |
talk |
Paul Wighton |
Answers to online questions here
The FreeSurfer Evaluation is here!
Thursday, April 4th - fMRI Analysis / Multimodal Analysis / Future Directions
Time |
Title |
Type |
Lecturer |
8:00 - 9:00 |
*** Optional session, extra support for fMRI and Diffusion Questions |
-- |
staff |
9:00 - 9:30 |
talk |
Doug Greve |
|
9:30 - 10:00 |
tutorial |
staff |
|
10:00 - 10:20 |
break & Evaluation |
|
|
10:20 - 11:20 |
talk |
Doug Greve |
|
11:20 - 12:00 |
tutorial |
staff |
|
12:00 - 1:00 |
Lunch |
-- |
-- |
1:00 - 1:30 |
talk |
Lilla Zöllei |
|
1:30 - 1:45 |
talk |
Doug Greve |
|
1:45 - 2:15 |
talk |
Doug Greve |
|
2:15 - 3:00 |
tutorial |
staff |
|
3:00 - 3:15 |
break |
|
|
3:15 - 3:30 |
talk |
Doug Greve |
|
3:30 - 4:30 |
Future Directions |
talk |
FS Development Team |
4:30 - 5:00 |
Question & Answer Session |
-- |
staff |
Answers to online questions here
FreeSurfer Merchandise
Enjoyed our course? Purchase our awesome FreeSurfer T-shirts here.