Diff for "FsTutorial/April2018CourseSchedule"

Differences between revisions 1 and 26 (spanning 25 versions)

FreeSurfer Course, April 2-5, 2018

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, April 2nd - Introduction / Single Subject Analysis / ROI Analysis

Time	Title	Type	Lecturer
8:30 - 9:00	** Intro to Linux for FreeSurfer Users	talk/demo	Leah Morgan
9:00 - 9:15	** Intro to FreeSurfer Jargon	talk	Morgan Fogarty & Caroline Magnain
9:15 - 9:30	break
9:30 - 10:15	Introduction to Freesurfer	talk	Bruce Fischl
10:15 - 11:25	Analyzing the Individual Subject	talk	Doug Greve
11:25 - 11:45	break
11:45 - 12:00	Freeview demonstration	demo	Bram Diamond
12:00 - 12:30	Interaction with Individual Subject Data Tutorial	tutorial	staff
12:30 - 1:30	Lunch (Suggestions for where to eat)	--	--
1:30 - 1:45	Interaction with Individual Subject Data Tutorial	tutorial	staff
1:45 - 2:15	Surface-based Analysis: Intersubject Registration & Smoothing	talk	Iman Aganj
2:15 - 2:35	break
2:35 - 3:05	ROI Analysis	talk	Emma Boyd
3:05 - 3:50	ROI Analysis Tutorial	tutorial	staff
3:50 - 4:20	Structural & Functional Data Integration	talk	David Salat
4:20 - 4:50	Practice Working with Data	tutorial	staff

Answers to online questions here

Tuesday, April 3rd - 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	Viviana Siless
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	talk	Paul Wighton
4:50 - 5:30	LongitudinalTutorial	tutorial	staff
5:30 - 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, April 4th - Multimodal Analysis / Diffusion Analysis / fMRI Analysis / MR Acquisition

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	** A Non-physicist's Intro to MR (SpinBench)	talk	Robert Frost
9:30 - 10:00	Multi-Modal Integration, Part 1: Registration	talk	Aina Frau-Pascual
10:00 - 10:30	Multi-Modal Integration Tutorial, Part 1	tutorial	staff
10:30 - 10:50	break
10:50 - 11:05	** A Non-Physicist's Intro to Diffusion MRI Physics	talk	Robert Frost
11:05 - 11:45	Introduction to Diffusion MRI	talk	Anastasia Yendiki
11:45 - 12:30	Diffusion Processing Tutorial	tutorial	staff
12:30 - 1:30	Lunch	--	--
1:30 - 2:20	TRActs Constrained by UnderLying Anatomy (TRACULA)	talk	Anastasia Yendiki
2:20 - 3:20	Tracula Tutorial	tutorial	staff
3:20 - 3:40	break
3:40 - 3:50	Longitudinal TRACULA	talk	Anastasia Yendiki
3:50 - 4:50	Basics of fMRI Analysis	talk	Isik Karahanoglu
4:50 - 5:50	*** Optional time to work on tutorials / work on your own data / ask basic questions	--	Emma Boyd

Answers to online questions here

The FreeSurfer Evaluation is here!

Thursday, April 5th - 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	Isik Karahanoglu
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	* An Overview of Image Registration	talk	Iman Aganj
1:30 - 2:00	Multi-Modal Integration, Part 2: Group Analysis	talk	Doug Greve
2:00 - 2:45	Multi-Modal Integration Tutorial, Part 2	tutorial	staff
2:45 - 3:15	Resting State fMRI	talk	Doug Greve
3:00 - 3:15	break
3:15 - 3:45	FreeSurfer vs. VBM	talk	Doug Greve
3:45 - 4:30	Future Directions	talk	Bruce Fischl
4:30 - 5:00	Question & Answer Session	--	staff

Answers to online questions here

FsTutorial/April2018CourseSchedule (last edited 2018-07-26 14:10:40 by LeahMorgan)

-  ⇤ ← Revision 1 as of 2018-01-16 12:30:56 → 
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+   ← Revision 26 as of 2018-03-29 14:02:04 → ⇥
  Size: 9590
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-Deletions are marked like this.
+Additions are marked like this.
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-'''!FreeSurfer Course, September 25-28, 2017'''
+'''!FreeSurfer Course, April 2-5, 2018'''
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-==== Monday, September 25th - Introduction / Single Subject Analysis / ROI Analysis  ====
+==== Monday, April 2nd - Introduction / Single Subject Analysis / ROI Analysis  ====
 Line 11:
-||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/Unix_EB.pptx|Intro to Linux for FreeSurfer Users]] ||talk/demo || Emma Boyd||
||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/BarcelonaSept2017/fsjargon_EB_clean.ppt|Intro to FreeSurfer Jargon]] ||talk || Morgan Fogarty & Caroline Magnain ||
+||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/Unix_EB.pptx|Intro to Linux for FreeSurfer Users]] ||talk/demo || Leah Morgan||
||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.pptx|Intro to FreeSurfer Jargon]] ||talk || Morgan Fogarty & Caroline Magnain ||
 Line 14:
-||9:30 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.intro.sep.2017.ppt|Introduction to Freesurfer]] ||talk ||Bruce Fischl ||
||10:00 - 11:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.pptx|Analyzing the Individual Subject]] ||talk ||Doug Greve ||
||11:10 - 11:30 ||'''break''' || || ||
||11:30 - 11:45 ||Freeview demonstration ||[[FsTutorial/FreeviewDemo|demo]] || Andrew Hoopes||
||11:45 - 12:15 ||[[FsTutorial/OutputData_freeview|Interaction with Individual Subject Data Tutorial]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] ||
||12:15 - 1:15 ||'''Lunch''' [[https://surfer.nmr.mgh.harvard.edu/fswiki/CourseDescription?action=AttachFile&do=get&target=CourseMap.jpg|(Suggestions for where to eat)]] ||-- ||-- ||
||1:15 - 1:30 ||[[FsTutorial/OutputData_freeview|Interaction with Individual Subject Data Tutorial]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] ||
||1:30 - 2:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.surface-based-analysis.ppt|Surface-based Analysis: Intersubject Registration & Smoothing]] ||talk ||??? ||
||2:00 - 2:20 ||'''break''' || || ||
||2:20 - 3:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.pptx|ROI Analysis]] ||talk ||Doug Greve ||
||3:20 - 4:00 ||[[FsTutorial/AnatomicalROIV6.0|ROI Analysis Tutorial]] ||tutorial ||staff ||
||4:00 - 4:30 ||[[https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Practice|Practice Working with Data]] ||tutorial ||staff ||
||4:30 - 5:00 || || || ||
+||9:30 - 10:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.intro.sep.2017.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 ||Freeview demonstration ||[[FsTutorial/FreeviewDemo|demo]] || Bram Diamond ||
||12:00 - 12:30 ||[[FsTutorial/OutputData_freeview|Interaction with Individual Subject Data Tutorial]] ||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|Interaction with Individual Subject Data Tutorial]] ||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.pptx|ROI Analysis]] ||talk ||Emma Boyd ||
||3:05 - 3:50 ||[[FsTutorial/AnatomicalROIV6.0|ROI Analysis Tutorial]] ||tutorial ||staff ||
||3:50 - 4:20 || Structural & Functional Data Integration ||talk ||David Salat ||
||4:20 - 4:50 ||[[https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Practice|Practice Working with Data]] ||tutorial ||staff ||
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-==== Tuesday, September 26th - Group Analysis / Longitudinal Analysis / Troubleshooting ====
+==== Tuesday, April 3rd - Group Analysis / Longitudinal Analysis / Troubleshooting ====
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-||9:00 - 9:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/Copenhagen_Group_Analysis.pptx|Group Analysis]] ||talk || Emily Lindemer ||
+||9:00 - 9:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/Copenhagen_Group_Analysis.pptx|Group Analysis]] ||talk || Viviana Siless ||
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-||11:30 - 12:00 ||[[FsTutorial/MultipleComparisonsV6.0|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
+||11:30 - 12:00 ||[[FsTutorial/MultipleComparisonsV6.0Perm|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
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-||4:05 - 4:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.longitudinal.pptx|Longitudinal FreeSurfer]] see also:'' [[FsTutorial/LongitudinalTutorial|LongitudinalTutorial]]'' ||talk ||Lilla Zöllei ||
||4:50 - 5:20 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Registration Methods]] ||talk ||??? ||
||5:20 - 6:15 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
+||4:05 - 4:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.longitudinal.pptx|Longitudinal FreeSurfer]] ||talk ||Paul Wighton ||
||4:50 - 5:30 || [[FsTutorial/LongitudinalTutorialV6.0|LongitudinalTutorial]] ||tutorial ||staff ||
||5:30 - 6:15 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
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-==== Wednesday, September 27th - Multimodal Analysis / Diffusion Analysis / fMRI Analysis / MR Acquisition ====
+==== Wednesday, April 4th - Multimodal Analysis / Diffusion Analysis / fMRI Analysis / MR Acquisition ====
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-||8:00 - 8:30 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/IntroMRI.pptx|A Non-physicist's Intro to MR]] ([[http://www.heartvista.com/SpinBench|SpinBench]])'' '' ||talk ||Robert Frost ||
||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.pptx|Multi-Modal Integration, Part 1: Registration]] ||talk || ???||
||9:30 - 10:00 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial, Part 1]] ||tutorial ||staff ||
||10:00 - 10:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/IntroDiffusion.pptx|A Non-Physicist's Intro to Diffusion MRI Physics]] '' '' ||talk ||Robert Frost ||
||10:15 - 10:35 ||'''break''' || || ||
||10:35 - 11:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BarcelonaSept2017/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
||11:15 - 12:00 ||[[FsTutorial/DiffusionV6.0|Diffusion Processing Tutorial]] ||tutorial ||staff ||
||12:00 - 1:00 ||'''Lunch''' ||-- ||-- ||
||1:00 - 1:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|TRActs Constrained by UnderLying Anatomy (TRACULA)]] ||talk ||Anastasia Yendiki ||
||1:50 - 2:50 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff ||
||2:50 - 3:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|Longitudinal TRACULA]] ||talk ||Anastasia Yendiki ||
||3:00 - 3:20 ||'''break''' || || ||
||3:20 - 4:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BarcelonaSept2017/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Isik Karahanoglu ||
||4:20 - 5:20 ||*** Optional time to work on [[FsTutorial/LongitudinalTutorial|LongitudinalTutorial]] ||tutorial ||staff ||
+||8:00 - 9:00 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
||9:00 - 9:30 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/IntroMRI.pptx|A Non-physicist's 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.multimodal-integration.Part1.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.pptx|A Non-Physicist's Intro to Diffusion MRI Physics]] '' '' ||talk ||Robert Frost ||
||11:05 - 11:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BarcelonaSept2017/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/BarcelonaSept2017/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Isik Karahanoglu ||
||4:50 - 5:50 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
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-==== Thursday, September 28th - fMRI Analysis / Multimodal Analysis / Future Directions ====
+==== Thursday, April 5th - fMRI Analysis / Multimodal Analysis / Future Directions ====
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-||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.ppt|FSFAST, Part 1: Preprocessing]] ||talk ||Doug Greve ||
+||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.ppt|FSFAST, Part 1: Preprocessing]] ||talk ||Isik Karahanoglu ||
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-||10:00 - 10:20 ||'''break''' & [[https://goo.gl/forms/JvcTvPkC1nKAmfWy2|Evaluation]] || || ||
+||10:00 - 10:20 ||'''break''' & Evaluation || || ||
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-||1:00 - 1:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.pptx|Multi-Modal Integration, Part 2: Group Analysis]] ||talk ||Doug Greve ||
||1:30 - 2:15 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial, Part 2]] ||tutorial ||staff ||
||2:15 - 2:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/resting-state.fmri.ppt|Resting State fMRI]] ||talk ||Doug Greve ||
||2:45 - 3:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.vbm.ppt|FreeSurfer vs. VBM]] ||talk ||Doug Greve ||
+||1:00 - 1:30 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Image Registration]] ||talk || Iman Aganj||
||1:30 - 2:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.pptx|Multi-Modal Integration, Part 2: Group Analysis]] ||talk ||Doug Greve ||
||2:00 - 2:45 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial, Part 2]] ||tutorial ||staff ||
||2:45 - 3:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/resting-state.fmri.ppt|Resting State fMRI]] ||talk ||Doug Greve ||
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-||3:15 - 3:45 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||André van der Kouwe ||
+||3:15 - 3:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.vbm.ppt|FreeSurfer vs. VBM]] ||talk ||Doug Greve ||
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+##||3:15 - 3:45 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||André van der Kouwe ||