Diff for "FsTutorial/April2016CourseSchedule"

Differences between revisions 4 and 28 (spanning 24 versions)

FreeSurfer Course, April 4-7

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 covering basic/beginner material.

Monday, April 4th - Introduction / Single Subject Analysis / ROI Analysis

Time	Title	Type	Lecturer
8:30 - 9:00	** Intro to Linux for FreeSurfer Users	talk/tutorial	Zeke Kaufman
9:00 - 9:15	** Intro to FreeSurfer Jargon	talk	Allison Stevens & Lilla Zollei
9:15 - 9:45	** A Non-physicist's Intro to MR (SpinBench)	talk	Dylan Tisdall
9:45 - 10:00	break
10:00 - 10:30	Introduction to Freesurfer	talk	Bruce Fischl
10:30 - 11:40	Analyzing the Individual Subject	talk	Doug Greve
11:40 - 12:00	Freeview demonstration	demo	Allison Moreau
12:00 - 1:00	Lunch (Suggestions for where to eat)	--	--
1:00 - 2:00	Interaction with Individual Subject Data Tutorial	tutorial	staff
2:00 - 2:30	* MRI Acquisition Methods	talk	Andre van der Kouwe
2:30 - 2:50	break
2:50 - 3:20	Surface-based Analysis: Intersubject Registration & Smoothing	talk	Doug Greve
3:20 - 3:50	ROI Analysis	talk	Doug Greve
3:50 - 4:40	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).

Tuesday, April 5th - Group Analysis / Longitudinal Analysis / Multimodal Analysis

Time	Title	Type	Lecturer
9:00 - 9:30	** Basics of Group Analysis	talk	Emily Lindemer
9:30 - 10:10	Group Analysis	talk	Emily Lindemer
10:10 - 10:30	break
10:30 - 11:10	Group Analysis Tutorial	tutorial	staff
11:10 - 11:30	Multiple Comparisons	talk	Emily Lindemer
11:30 - 11:50	Multiple Comparisons Tutorial	tutorial	staff
11:50 - 12:50	Lunch	--	--
12:50 - 1:10	QDEC demonstration	demo	Martin Reuter
1:10 - 1:50	QDEC Tutorial	tutorial	staff
1:50 - 2:35	Longitudinal FreeSurfer see also: LongitudinalProcessing	talk	Martin Reuter
2:35 - 2:55	break
2:55 - 3:35	Longitudinal Tutorial	tutorial	staff
3:35 - 4:05	Multi-Modal Integration, Part 1	talk	Lilla Zollei
4:05 - 4:30	Multi-Modal Integration Tutorial: Multimodal Registration	tutorial	staff
4:30 - 5:10	* An Overview of Registration Methods	talk	Lilla Zollei

Answers to online questions here

Wednesday, April 6th - Diffusion Analysis / fMRI Analysis

Time	Title	Type	Lecturer
9:00 - 9:15	** A Non-Physicist's Intro to Diffusion MRI Physics	talk	Dylan Tisdall
9:15 - 10:00	Introduction to Diffusion MRI	talk	Anastasia Yendiki
10:00 - 10:40	Diffusion Processing Tutorial	tutorial	staff
10:40 - 11:00	break
11:00 - 11:40	TRActs Constrained by UnderLying Anatomy (TRACULA)	talk	Anastasia Yendiki
11:40 - 12:00	Tracula Tutorial	tutorial	staff
12:00 - 1:00	Lunch	--	--
1:00 - 1:30	Tracula Tutorial	tutorial	staff
1:30 - 1:40	Longitudinal TRACULA	talk	Anastasia Yendiki
1:40 - 1:55	break
1:55 - 2:55	Basics of fMRI Analysis	talk	Jon Polimeni
2:55 - 3:35	FSFAST	talk	Doug Greve
3:35 - 3:50	break
3:50 - 4:30	FSFAST	talk	Doug Greve
4:30 - 5:30	FSFAST Tutorial	tutorial	staff

Answers to online questions here

Thursday, April 7th - Multimodal Analysis / Troubleshooting / Future Directions

Time	Title	Type	Lecturer
8:30 - 9:00	* Motion-compensated Neuroanatomical Imaging	talk	Dylan Tisdall
9:00 - 9:30	Multi-Modal Integration, Part 2	talk	Doug Greve
9:30 - 10:00	Multi-Modal Integration Tutorial: fMRI Integration & Surface-based Group fMRI Analysis	tutorial	staff
10:00 - 10:30	FreeSurfer Troubleshooting	talk	Bruce Fischl
10:30 - 11:00	break & Evaluation
11:00 - 12:00	Troubleshooting Tutorial	tutorial	staff
12:00 - 1:00	Lunch	--	--
1:00 - 2:00	Quality Checking a Recon	demo	Allison Moreau
2:00 - 2:50	Future Directions	talk	Bruce Fischl
2:50 - 3:00	Question & Answer session	--	staff

Answers to online questions here

FsTutorial/April2016CourseSchedule (last edited 2016-04-07 10:33:03 by AllisonStevens)

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-==== Monday, April 4th - Introduction / Single Subject Analysis / Troubleshooting ====
+* 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 covering basic/beginner material.


==== Monday, April 4th - Introduction / Single Subject Analysis / ROI Analysis ====
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-||8:30 - 9:00 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/unix_tutorial_bash.ppt|Unix Tutorial for FreeSurfer Users]] ||talk/tutorial ||Zeke Kaufman ||
||9:00 - 9:15 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.ppt|Intro to FreeSurfer Jargon]] ||talk ||Allison Stevens & Lilla Zollei ||
||9:15 - 9:30 ||'''break''' || || ||
||9:30 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.intro.ppt|Introduction to Freesurfer]] ||talk ||Bruce Fischl ||
||10:00 - 11:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.ppt|Analyzing the Individual Subject]] ||talk ||Doug Greve ||
||11:10 - 11:30 ||'''break''' || || ||
||11:30 - 11:45 ||Freeview demonstration ||[[FreeviewGuide|demo]] ||Allison Moreau ||
||11:45 - 12:00 ||[[FsTutorial/OutputData_freeview|Interaction with Individual Subject Data Tutorial]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] ||
+||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/Unix_tutorial_zjk.pdf|Intro to Linux for FreeSurfer Users]] ||talk/tutorial ||Zeke Kaufman ||
||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.ppt|Intro to FreeSurfer Jargon]] ||talk ||Allison Stevens & Lilla Zollei ||
||9:15 - 9:45 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Sep_2015_MRI_Basics.pdf|A Non-physicist's Intro to MR]] ([[http://www.heartvista.com/SpinBench|SpinBench]])'' '' ||talk ||Dylan Tisdall ||
||9:45 - 10:00 ||'''break''' || || ||
||10:00 - 10:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.intro.ppt|Introduction to Freesurfer]] ||talk ||Bruce Fischl ||
||10:30 - 11:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.ppt|Analyzing the Individual Subject]] ||talk ||Doug Greve ||
||11:40 - 12:00 ||Freeview demonstration ||[[FreeviewGuide|demo]] ||Allison Moreau ||
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-||1:00 - 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/freesurfer.failure_modes.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
||2:15 - 2:35 ||'''break''' || || ||
||2:35 - 3:35 ||Quality Checking a Recon ||demo ||Ani Varjabedian ||
||3:35 - 4:35 ||[[FsTutorial/TroubleshootingData|Troubleshooting Tutorial]] ||tutorial ||staff ||
||4:35 - 5:35 || '''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Sep_2015_MRI_Basics.pdf|A Non-physicist's Intro to MR]] [[http://www.heartvista.com/SpinBench|SpinBench]]'' '' ||talk ||Dylan Tisdall ||

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

==== Tuesday, April 5th - Group Analysis / Longitudinal Analysis / ROI Analysis ====
||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' ||
||9:00 - 9:30 ||'''optional -''' Basics of Group Analysis ||talk ||Emily Lindemer ||
||9:30 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.surface-based-analysis.ppt|Surface-based Analysis: Intersubject Registration & Smoothing]] ||talk ||Doug Greve ||
||10:00 - 10:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.groupanalysis.ppt|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/freesurfer.multiplecomparisons.ppt|Multiple Comparisons]] ||talk ||Emily Lindemer ||
||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 - 3:25 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|Longitudinal FreeSurfer]] see also:'' LongitudinalProcessing '' ||talk ||Martin Reuter ||
||3:25 - 4:05 ||[[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Tutorial]] ||tutorial ||staff ||
||4:05 - 4:20 ||'''break''' || ||
||4:20 - 4:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.ppt|ROI Analysis]] ||talk ||Doug Greve ||
||4:50 - 5:20 ||[[FsTutorial/AnatomicalROI|ROI Analysis Tutorial]] ||tutorial ||staff ||
+||1:00 - 2:00 ||[[FsTutorial/OutputData_freeview|Interaction with Individual Subject Data Tutorial]] ||tutorial ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/staff2013.jpg|staff]] ||
||2:00 - 2:30 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||Andre van der Kouwe ||
||2:30 - 2:50 ||'''break''' || || ||
||2:50 - 3:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.surface-based-analysis.ppt|Surface-based Analysis: Intersubject Registration & Smoothing]] ||talk ||Doug Greve ||
||3:20 - 3:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.ppt|ROI Analysis]] ||talk ||Doug Greve ||
||3:50 - 4:40 ||[[FsTutorial/AnatomicalROI|ROI Analysis Tutorial]] ||tutorial ||staff ||
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-==== Wednesday, April 6th - Multimodal Analysis / fMRI / Diffusion ====
+==== Tuesday, April 5th - Group Analysis / Longitudinal Analysis / Multimodal Analysis ====
||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' ||
||9:00 - 9:30 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FS_GLM_Spring2016.ppt|Basics of Group Analysis]] ||talk ||Emily Lindemer ||
||9:30 - 10:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.groupanalysis.ERL.ppt|Group Analysis]] ||talk ||Emily Lindemer ||
||10:10 - 10:30 ||'''break''' || ||
||10:30 - 11:10 ||[[FsTutorial/GroupAnalysis|Group Analysis Tutorial]] ||tutorial ||staff ||
||11:10 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.multiplecomparisons.ppt|Multiple Comparisons]] ||talk ||Emily Lindemer ||
||11:30 - 11:50 ||[[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis#ClusterwiseCorrectionforMultipleComparisons|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
||11:50 - 12:50 ||'''Lunch''' ||-- ||-- ||
||12:50 - 1:10 ||QDEC demonstration ||demo ||Martin Reuter ||
||1:10 - 1:50 ||[[FsTutorial/QdecGroupAnalysis_freeview|QDEC Tutorial]] ||tutorial ||staff ||
||1:50 - 2:35 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|Longitudinal FreeSurfer]] see also:'' LongitudinalProcessing '' ||talk ||Martin Reuter ||
||2:35 - 2:55 ||'''break''' || ||
||2:55 - 3:35 ||[[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Tutorial]] ||tutorial ||staff ||
||3:35 - 4:05 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.ppt|Multi-Modal Integration, Part 1]] ||talk ||Lilla Zollei ||
||4:05 - 4:30 ||[[FsTutorial/MultiModal_freeview|Multi-Modal Integration Tutorial: Multimodal Registration]] ||tutorial ||staff ||
||4:30 - 5:10 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Registration Methods]] ||talk ||Lilla Zollei ||



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



==== Wednesday, April 6th - Diffusion Analysis / fMRI Analysis  ====
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-||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.ppt|Multi-Modal Integration, Part 1]] ||talk ||Lilla or Doug? ||
||9:30 - 10:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
||10:10 - 10:40 ||[[FsTutorial/Diffusion|Diffusion Processing Tutorial]] ||tutorial ||staff ||
||10:40 - 10:55 ||'''break''' || ||
||10:55 - 11:25 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|TRActs Constrained by UnderLying Anatomy (TRACULA)]] ||talk ||Anastasia Yendiki ||
||11:25 - 12:00 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff ||
||12:00 - 12:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|Longitudinal TRACULA]] ||talk ||Anastasia Yendiki ||
||12:15 - 1:15 ||'''Lunch''' ||-- ||-- ||
||1:15 - 1:45 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Sep_2015_Diffusion.pdf|A Non-Physicist's Intro to Diffusion MRI Physics]] '' '' ||talk ||Dylan Tisdall ||
||1:45 - 2:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Jon Polimeni ||
||2:45 - 3:05 ||'''break''' & Evaluation || ||
||3:05 - 4:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST]] ||talk || Doug Greve ||
||4:15 - 5:15 ||[[FsFastTutorialV5.1_freeview|FSFAST Tutorial]] ||tutorial ||staff ||
+||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Sep_2015_Diffusion.pdf|A Non-Physicist's Intro to Diffusion MRI Physics]] '' '' ||talk ||Dylan Tisdall ||
||9:15 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
||10:00 - 10:40 ||[[FsTutorial/Diffusion_DtiIntegration|Diffusion Processing Tutorial]] ||tutorial ||staff ||
||10:40 - 11:00 ||'''break''' || ||
||11:00 - 11:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|TRActs Constrained by UnderLying Anatomy (TRACULA)]] ||talk ||Anastasia Yendiki ||
||11:40 - 12:00 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff ||
||12:00 - 1:00 ||'''Lunch''' ||-- ||-- ||
||1:00 - 1:30 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff ||
||1:30 - 1:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|Longitudinal TRACULA]] ||talk ||Anastasia Yendiki ||
||1:40 - 1:55 ||'''break''' || ||
||1:55 - 2:55 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Jon Polimeni ||
||2:55 - 3:35 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST]] ||talk ||Doug Greve ||
||3:35 - 3:50 ||'''break''' || ||
||3:50 - 4:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST]] ||talk ||Doug Greve ||
||4:30 - 5:30 ||[[FsFastTutorialV5.1_freeview|FSFAST Tutorial]] ||tutorial ||staff ||
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-==== Thursday, April 7th - Multimodal Analysis / MRI Acquisition Tips / Future Directions ====
+==== Thursday, April 7th - Multimodal Analysis / Troubleshooting / Future Directions ====
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-||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.ppt|Multi-Modal Integration, Part 2]] ||talk ||Lilla Zollei ||
||9:30 - 10:30 ||[[FsTutorial/MultiModal_freeview|Multi-Modal Integration Tutorial]] ||tutorial ||staff ||
||10:30 - 10:50 ||'''break''' || ||
||10:50 - 11:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Registration Methods]] ||talk ||Lilla Zollei ||
||11:20 - 11:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||Andre van der Kouwe ||
||11:50 - 12:50 ||'''Lunch''' ||-- ||-- ||
||12:50 - 1:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_Motion_Correction.pdf|Motion-compensated Neuroanatomical Imaging]] ||talk ||Dylan Tisdall ||
||1:20 - 2:00 ||Future Directions ||talk ||Bruce Fischl ||
||2:00 - 2:30 ||Question & Answer session ||-- ||staff ||
+||8:30 - 9:00 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_Motion_Correction.pdf|Motion-compensated Neuroanatomical Imaging]] ||talk ||Dylan Tisdall ||
||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.ppt|Multi-Modal Integration, Part 2]] ||talk || Doug Greve ||
||9:30 - 10:00 ||[[FsTutorial/MultiModal_freeview|Multi-Modal Integration Tutorial: fMRI Integration & Surface-based Group fMRI Analysis]] ||tutorial ||staff ||
||10:00 - 10:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.failure_modes.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
||10:30 - 11:00 ||'''break''' & [[http://goo.gl/forms/xyGk2iJbp1|Evaluation]]  || ||
||11:00 - 12:00 ||[[FsTutorial/TroubleshootingData|Troubleshooting Tutorial]] ||tutorial ||staff ||
||12:00 - 1:00 ||'''Lunch''' ||-- ||-- ||
||1:00 - 2:00 ||Quality Checking a Recon ||demo ||Allison Moreau ||
||2:00 - 2:50 ||Future Directions ||talk ||Bruce Fischl ||
||2:50 - 3:00 ||Question & Answer session ||-- ||staff ||
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+* 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 covering basic/beginner material.