Diff for "FsTutorial/Sept2015CourseSchedule"

Differences between revisions 3 and 16 (spanning 13 versions)

FreeSurfer Course, September 28 - Oct 1

7:30 - 9:30am Registration Desk Open

Monday, September 28th - Introduction / Single Subject Analysis / Troubleshooting

Time	Title	Type	Lecturer
8:30 - 9:00	optional - Unix Tutorial for FreeSurfer Users	talk/tutorial	Allison Moreau
9:00 - 9:15	optional - Intro to FreeSurfer Jargon	talk	Allison Moreau & Lilla Zollei
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 - 12:10	Surface-based Analysis: Intersubject Smoothing & Registration	talk	Doug Greve
12:10 - 1:10	Lunch (Suggestions for where to eat)	--	--
1:10 - 1:40	optional - A Non-physicist's Intro to MR SpinBench	talk	Dylan Tisdall
1:40 - 2:00	Freeview demonstration	demo	Lee Tirrell
2:00 - 3:00	Interaction with Individual Subject Data Tutorial	tutorial	staff
3:00 - 3:20	break
3:20 - 3:50	FreeSurfer Troubleshooting	talk	Bruce Fischl
3:50 - 4:30	Quality Checking a Recon	demo	Ani Varjabedian

Answers to online questions here

Tuesday, September 29th - Group Analysis / Longitudinal Analysis / ROI Analysis

Time	Title	Type	Lecturer
9:00 - 10:00	Troubleshooting Tutorial	tutorial	staff
10:00 - 10:40	Group Analysis	talk	Emily Lindemer
10:40 - 11:00	break
11:00 - 11:40	Group Analysis Tutorial	tutorial	staff
11:40 - 12:00	Multiple Comparisons	talk	Martin Reuter
12:00 - 1:00	Lunch	--	--
1:00 - 1:20	Multiple Comparisons Tutorial	tutorial	staff
1:20 - 1:40	QDEC demonstration	demo	Martin Reuter
1:40 - 2:20	QDEC Tutorial	tutorial	staff
2:20 - 2:40	break
2:40 - 3:10	Longitudinal FreeSurfer see also: LongitudinalProcessing	talk	Martin Reuter
3:10 - 3:50	Longitudinal Tutorial	tutorial	staff
3:50 - 4:00	break
4:00 - 4:30	ROI Analysis	talk	Doug Greve
4:30 - 5:00	ROI Analysis Tutorial	tutorial	staff
6:15 - ?	Boston Beer Works	social activity	staff

Answers to online questions here

Boston Beer Works location information here and here.
Meet us in front of Building 149 to catch the 6:15pm 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 30th - fMRI / Diffusion

Time	Title	Type	Lecturer
9:00 - 9:30	Multi-Modal Integration, Part 1	talk	Doug Greve
9:30 - 10:10	Introduction to Diffusion MRI	talk	Anastasia Yendiki
10:10 - 10:30	break
10:30 - 11:20	TRActs Constrained by UnderLying Anatomy (TRACULA)	talk	Anastasia Yendiki
11:20 - 12:05	Tracula Tutorial	tutorial	staff
12:05 - 1:05	Lunch	--	--
1:05 - 1:20	optional - Diffusion Weighting in MR	talk	Dylan Tisdall
1:20 - 2:20	Basics of fMRI Analysis	talk	Jon Polimeni
2:20 - 2:30	break & Evaluation
2:40 - 4:00	FSFAST	talk	Doug Greve
4:00 - 5:00	FSFAST Tutorial	tutorial	staff

Answers to online questions here

Thursday, October 1st - Troubleshooting / Multimodal Analysis / MRI Acquisition Tips / Future Directions

Time	Title	Type	Lecturer
9:00 - 10:00	optional - Q&A on Quality Checking Recons	Q&A/demo	Allison Stevens & staff
10:00 - 10:30	Multi-Modal Integration, Part 2	talk	Lilla Zollei
10:30 - 10:50	break
10:50 - 11:20	Multi-Modal Integration Tutorial	tutorial	staff
11:20 - 11:50	An Overview of Registration Methods	talk	Lilla Zollei
11:50 - 12:50	Lunch	--	--
12:50 - 1:20	MRI Acquisition Methods	talk	Andre van der Kouwe
1:20 - 1:50	Motion-compensated Neuroanatomical Imaging	talk	Dylan Tisdall
1:50 - 2:00	break
2:00 - 2:30	Future Directions	talk	TBD

Answers to online questions here

FsTutorial/Sept2015CourseSchedule (last edited 2017-09-26 11:31:49 by MorganFogarty)

-  ⇤ ← Revision 3 as of 2015-02-12 13:14:04 → 
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+   ← Revision 16 as of 2015-09-16 14:55:22 → ⇥
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-Deletions are marked like this.
+Additions are marked like this.
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-'''!FreeSurfer Course, May 5-7, 2014'''
+'''!FreeSurfer Course, September 28 - Oct 1'''
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-=== 8:00 - 9:30am Registration Desk Open ===
==== Monday, May 5th - Introduction / Single Subject Analysis /Troubleshooting ====
+=== 7:30 - 9:30am Registration Desk Open ===
==== Monday, September 28th - Introduction / Single Subject Analysis / Troubleshooting ====
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+Line 9:
-||8:00 - 8:30 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_MRI_Basics.pdf|A Non-physicist's Intro to MR]] [[http://www.heartvista.com/SpinBench|SpinBench]]'' '' ||talk ||Dylan Tisdall ||
||8:30 - 9:00 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/unix_tutorial_FS_course.ppt|Unix Tutorial for FreeSurfer Users]] ||tutorial ||Allison Moreau ||
||9:00 - 9:15 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.ppt|Intro to FreeSurfer Jargon]] ||talk ||Allison Moreau ||
+||8:30 - 9:00 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/unix_tutorial_FS_course.ppt|Unix Tutorial for FreeSurfer Users]] ||talk/tutorial ||Allison Moreau ||
||9:00 - 9:15 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.ppt|Intro to FreeSurfer Jargon]] ||talk || Allison Moreau & Lilla Zollei ||
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-||1:10 - 1:30 ||Freeview demonstration ||[[FreeviewGuide|demo]] ||Allison Moreau ||
||1:30 - 2:30 ||[[FsTutorial/OutputData_freeview|Interaction with Individual Subject Data Tutorial]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] ||
||2:30 - 3:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/freesurfer.failure_modes.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
+||1:10 - 1:40 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_MRI_Basics.pdf|A Non-physicist's Intro to MR]] [[http://www.heartvista.com/SpinBench|SpinBench]]'' '' ||talk ||Dylan Tisdall ||
||1:40 - 2:00 ||Freeview demonstration ||[[FreeviewGuide|demo]] ||Lee Tirrell ||
||2:00 - 3:00 ||[[FsTutorial/OutputData_freeview|Interaction with Individual Subject Data Tutorial]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] ||
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-||3:20 - 4:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/QArecon.ppt|Quality Checking a Recon]] ||demo ||Allison Stevens ||
||4:00 - 5:00 ||[[FsTutorial/TroubleshootingData|Troubleshooting Tutorial]] ||tutorial ||staff ||
||5:00 - 5:15 ||Question and Answer Session (Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]]) ||talk ||staff ||
+||3:20 - 3:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/freesurfer.failure_modes.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
||3:50 - 4:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/QArecon.ppt|Quality Checking a Recon]] ||demo ||Ani Varjabedian ||

Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]]

==== Tuesday, September 29th - Group Analysis / Longitudinal Analysis / ROI Analysis  ====
||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' ||
||9:00 - 10:00 ||[[FsTutorial/TroubleshootingData|Troubleshooting Tutorial]] ||tutorial ||staff ||
||10:00 - 10:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/freesurfer.groupanalysis.pdf|Group Analysis]] ||talk ||Emily Lindemer ||
||10:40 - 11:00 ||'''break''' || ||
||11:00 - 11:40 ||[[FsTutorial/GroupAnalysis|Group Analysis Tutorial]] ||tutorial ||staff ||
||11:40 - 12:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/freesurfer.multipecomparisons.ppt|Multiple Comparisons]] ||talk ||Martin Reuter ||
||12:00 - 1:00 ||'''Lunch''' ||-- ||-- ||
||1:00 - 1:20 ||[[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis#ClusterwiseCorrectionforMultipleComparisons|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
||1:20 - 1:40 ||QDEC demonstration ||demo ||Martin Reuter ||
||1:40 - 2:20 ||[[FsTutorial/QdecGroupAnalysis_freeview|QDEC Tutorial]] ||tutorial ||staff ||
||2:20 - 2:40 ||'''break''' || ||
||2:40 - 3:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|Longitudinal FreeSurfer]] see also:'' LongitudinalProcessing '' ||talk ||Martin Reuter ||
||3:10 - 3:50 ||[[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Tutorial]] ||tutorial ||staff ||
||3:50 - 4:00 ||'''break''' || ||
||4:00 - 4:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/fs.roi.ppt|ROI Analysis]] ||talk ||Doug Greve ||
||4:30 - 5:00 ||[[FsTutorial/AnatomicalROI|ROI Analysis Tutorial]] ||tutorial ||staff ||
||6:15 - ? || Boston Beer Works || social activity ||staff ||
Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]]

'''Boston Beer Works location information [[http://www.beerworks.net/html/locations_canal.html|here]] and [[http://maps.google.com/maps?f=q&source=s_q&hl=en&geocode=&q=112+Canal+Street+Boston,+MA+02114&aq=&sll=37.0625,-95.677068&sspn=44.25371,54.228516&ie=UTF8&hq=&hnear=112+Canal+St,+Boston,+Massachusetts+02114&ll=42.367359,-71.058776&spn=0.010131,0.013239&z=16|here]].'''<<BR>> Meet us in front of [[http://surfer.nmr.mgh.harvard.edu/fswiki/CourseDescription#Map|Building 149]] to catch the 6:15pm shuttle bus (it leaves on time!). <<BR>> 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. <<BR>>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).
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-##||5:00 - ||'''optional -''' [[DownloadAndInstall|FreeSurfer Installation on Personal Laptops]] ||one-on-one || staff || ||
##||5:00 - ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/runningyourdata.ppt|Start Processing Your Own Data|&do=get]] ||one-on-one || staff ||      ||
'''Boston Beer Works location information [[http://www.beerworks.net/html/locations_canal.html|here]] and [[http://maps.google.com/maps?f=q&source=s_q&hl=en&geocode=&q=112+Canal+Street+Boston,+MA+02114&aq=&sll=37.0625,-95.677068&sspn=44.25371,54.228516&ie=UTF8&hq=&hnear=112+Canal+St,+Boston,+Massachusetts+02114&ll=42.367359,-71.058776&spn=0.010131,0.013239&z=16|here]].'''<<BR>> Meet us in front of [[http://surfer.nmr.mgh.harvard.edu/fswiki/CourseDescription#Map|Building 149]] to catch the 6:15pm shuttle bus (it leaves on time!). <<BR>> 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. (If you miss the 6:15 bus, the next few buses depart at 6:30pm, 6:45pm, 7pm, 7:15pm, and 7:45pm).

==== Tuesday, May 6th - Group Analysis / ROI Analysis / Longitudinal ====
||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' ||
||9:00 - 9:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
||9:40 - 10:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/freesurfer.groupanalysis.pdf|Group Analysis]] ||talk ||Emily Lindemer ||
||10:20 - 10:40 ||'''break''' || ||
||10:40 - 11:20 ||[[FsTutorial/GroupAnalysis|Group Analysis Tutorial]] ||tutorial ||staff ||
||11:20 - 11:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/freesurfer.multipecomparisons.ppt|Multiple Comparisons]] ||talk ||Martin Reuter ||
||11:40 - 12:00 ||QDEC demonstration ||demo ||Martin Reuter ||
||12:00 - 1:00 ||'''Lunch''' ||-- ||-- ||
||1:00 - 1:20 ||[[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis#ClusterwiseCorrectionforMultipleComparisons|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
||1:20 - 2:00 ||[[FsTutorial/QdecGroupAnalysis_freeview|QDEC Tutorial]] ||tutorial ||staff ||
||2:00 - 2:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/fs.roi.ppt|ROI Analysis]] ||talk ||Doug Greve ||
||2:30 - 2:50 ||'''break''' || ||
||2:50 - 3:20 ||[[FsTutorial/AnatomicalROI|ROI Analysis Tutorial]] ||tutorial ||staff ||
||3:20 - 3:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|Longitudinal FreeSurfer]] see also:'' LongitudinalProcessing '' ||talk ||Martin Reuter ||
||3:50 - 4:30 ||[[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Tutorial]] ||tutorial ||staff ||
||4:30 - 5:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Jon Polimeni ||
||5:30 - 5:45 ||Question and Answer Session (Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]]) ||talk ||staff ||


==== Wednesday, May 7th - fMRI / Multimodal /  Future Directions / Q&A ====
+==== Wednesday, September 30th - fMRI / Diffusion  ====
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-||8:30 - 9:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.dti.ppt|Multi-Modal Integration, Part 1]] ||talk ||Doug Greve ||
||9:00 - 9:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST]] ||talk ||Doug Greve ||
||9:45 - 10:00 ||'''break''' || ||
||10:00 - 10:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST]] ||talk ||Doug Greve ||
||10:40 - 11:40 ||[[FsFastTutorialV5.1_freeview|FSFAST Tutorial]] ||tutorial ||staff ||
||11:40 - 12:40 ||'''Lunch''' ||-- ||-- ||
||12:40 - 1:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/fs.multimodal-integration.ppt|Multi-Modal Integration, Part 2]] ||talk ||Lilla Zollei ||
||1:10 - 2:25 ||[[FsTutorial/MultiModal_freeview|Multi-Modal Integration Tutorial]] ||tutorial ||staff ||
||2:25 - 2:45 ||'''break''' & Evaluation || ||
||2:45 - 3:35 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonOct2014/tracula,fs,10.29.14.ppt|TRActs Constrained by UnderLying Anatomy (TRACULA)]] ||talk ||Anastasia Yendiki ||
||3:35 - 4:20 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff ||
||4:20 - 4:50 ||Future Directions ||talk ||TBD ||
||4:50 - 5:05 ||Question and Answer Session (Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]]), FsQuiz ||talk ||staff ||
+||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.dti.ppt|Multi-Modal Integration, Part 1]] ||talk ||Doug Greve ||
||9:30 - 10:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
||10:10 - 10:30 ||'''break''' || ||
||10:30 - 11:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonOct2014/tracula,fs,10.29.14.ppt|TRActs Constrained by UnderLying Anatomy (TRACULA)]] ||talk ||Anastasia Yendiki ||
||11:20 - 12:05 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff ||
||12:05 - 1:05 ||'''Lunch''' ||-- ||-- ||
||1:05 - 1:20 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_MRI_Basics.pdf|Diffusion Weighting in MR]] '' '' ||talk ||Dylan Tisdall ||
||1:20 - 2:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Jon Polimeni ||
||2:20 - 2:30 ||'''break''' & Evaluation || ||
||2:40 - 4:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST]] ||talk ||Doug Greve ||
||4:00 - 5:00 ||[[FsFastTutorialV5.1_freeview|FSFAST Tutorial]] ||tutorial ||staff ||
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+Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]]
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-==== Day 4 ====
+==== Thursday, October 1st - Troubleshooting / Multimodal Analysis / MRI Acquisition Tips / Future Directions  ====
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-||9:00 - 9:30 ||'''optional technical talk -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|Registration Methods]] ||talk ||Lilla Zollei ||
||9:30 - 10:30 ||More Quality Checking a Recon ||demo ||Allison Stevens ||
||10:30 - 10:50 ||'''break''' || ||
||10:50 - 11:20 ||'''optional technical talk -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods for Morphometry]] ||talk ||Andre van der Kouwe ||
||11:20 - 11:50 ||'''optional technical talk -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_Motion_Correction.pdf|Motion-compensated neuroanatomical imaging]] ||talk ||Dylan Tisdall ||
+||9:00 - 10:00 ||'''optional -''' Q&A on Quality Checking Recons || Q&A/demo ||Allison Stevens & staff ||
||10:00 - 10:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/fs.multimodal-integration.ppt|Multi-Modal Integration, Part 2]] ||talk ||Lilla Zollei ||
||10:30 - 10:50 ||'''break'''  || ||
||10:50 - 11:20 ||[[FsTutorial/MultiModal_freeview|Multi-Modal Integration Tutorial]] ||tutorial ||staff ||
||11:20 - 11:50 || [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Registration Methods]] ||talk ||Lilla Zollei ||
||11:50 - 12:50 ||'''Lunch''' ||-- ||-- ||
||12:50 - 1:20 || [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||Andre van der Kouwe ||
||1:20 - 1:50 || [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_Motion_Correction.pdf|Motion-compensated Neuroanatomical Imaging]] ||talk ||Dylan Tisdall ||
||1:50 - 2:00 ||'''break'''  || ||
||2:00 - 2:30 ||Future Directions ||talk ||TBD ||

Answers to online questions [[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers|here]]