Diff for "FsTutorial/Sept2015CourseSchedule"

Differences between revisions 12 and 36 (spanning 24 versions)

FreeSurfer Course, September 28 - Oct 1

8:00 - 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	Bruce Fischl
11:10 - 11:30	break
11:30 - 11:45	Freeview demonstration	demo	Lee Tirrell
11:45 - 12:00	Interaction with Individual Subject Data Tutorial	tutorial	staff
12:00 - 1:00	Lunch (Suggestions for where to eat)	--	--
1:00 - 1:45	Interaction with Individual Subject Data Tutorial	tutorial	staff
1:45 - 2:15	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	Troubleshooting Tutorial	tutorial	staff

Answers to online questions here

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

Time	Title	Type	Lecturer
9:00 - 9:30	optional - A Non-physicist's Intro to MR SpinBench	talk	Dylan Tisdall
9:30 - 10:00	Surface-based Analysis: Intersubject Registration & Smoothing	talk	Lilla Zollei
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	Emily Lindemer
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 - 3:25	Longitudinal FreeSurfer see also: LongitudinalProcessing	talk	Martin Reuter
3:25 - 4:05	Longitudinal Tutorial	tutorial	staff
4:05 - 4:20	break
4:20 - 4:50	ROI Analysis	talk	Martin Reuter
4:50 - 5:20	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 - Multimodal Analysis / fMRI / Diffusion

Time	Title	Type	Lecturer
9:00 - 9:30	Multi-Modal Integration, Part 1	talk	Lilla Zollei
9:30 - 10:10	Introduction to Diffusion MRI	talk	Anastasia Yendiki
10:10 - 10:40	Diffusion Processing Tutorial	tutorial	staff
10:40 - 10:55	break
10:55 - 11:25	TRActs Constrained by UnderLying Anatomy (TRACULA)	talk	Anastasia Yendiki
11:25 - 12:00	Tracula Tutorial	tutorial	staff
12:00 - 12:15	Longitudinal TRACULA	talk	Anastasia Yendiki
12:15 - 1:15	Lunch	--	--
1:15 - 1:45	optional - A Non-Physicist's Intro to Diffusion MRI Physics	talk	Dylan Tisdall
1:45 - 2:45	Basics of fMRI Analysis	talk	Jon Polimeni
2:45 - 3:05	break & Evaluation
3:05 - 4:15	FSFAST	talk	Natalia Zaretskaya
4:15 - 5:15	FSFAST Tutorial	tutorial	staff

Answers to online questions here

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

Time	Title	Type	Lecturer
9:00 - 9:30	Multi-Modal Integration, Part 2	talk	Lilla Zollei
9:30 - 10:30	Multi-Modal Integration Tutorial	tutorial	staff
10:30 - 10:50	break
10:50 - 11:20	An Overview of Registration Methods	talk	Lilla Zollei
11:20 - 11:50	MRI Acquisition Methods	talk	Andre van der Kouwe
11:50 - 12:50	Lunch	--	--
12:50 - 1:20	Motion-compensated Neuroanatomical Imaging	talk	Dylan Tisdall
1:20 - 2:00	Future Directions	talk	Bruce Fischl
2:00 - 2:30	Question & Answer session	--	staff

Answers to online questions here

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

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+=== 8:00 - 9:30am Registration Desk Open ===
==== Monday, September 28th - Introduction / Single Subject Analysis / Troubleshooting ====
||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' ||
||8:30 - 9:00 ||'''optional -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/unix_tutorial_bash.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 ||
||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 ||Bruce Fischl ||
||11:10 - 11:30 ||'''break''' || || ||
||11:30 - 11:45 ||Freeview demonstration ||[[FreeviewGuide|demo]] ||Lee Tirrell ||
||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]] ||
||12:00 - 1:00 ||'''Lunch''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/lunch_map.jpg|(Suggestions for where to eat)]] ||-- ||-- ||
||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 ||
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-=== 7:30 - 9:30am Registration Desk Open ===
==== Monday, September 28th - Introduction / Single Subject Analysis /Troubleshooting ====
+==== Tuesday, September 29th - Group Analysis / Longitudinal Analysis / ROI Analysis ====
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-||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 ||
||9:15 - 9:30 ||'''break''' || || ||
||9:30 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/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 - 12:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.surface-based-analysis.ppt|Surface-based Analysis: Intersubject Smoothing & Registration]] ||talk ||Doug Greve ||
||12:10 - 1:10 ||'''Lunch''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/lunch_map.jpg|(Suggestions for where to eat)]] ||-- ||-- ||
||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]] ||
||3:00 - 3:20 ||'''break''' || || ||
||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 ||


==== Tuesday, September 29th - Diffusion / Group Analysis / ROI Analysis / Longitudinal / fMRI ====
||'''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 ||
+||9:00 - 9:30 ||'''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 ||
||9:30 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.surface-based-analysis.ppt|Surface-based Analysis: Intersubject Registration & Smoothing]] ||talk ||Lilla Zollei ||
||10:00 - 10:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.groupanalysis.ppt|Group Analysis]] ||talk ||Emily Lindemer ||
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-||11:40 - 12:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BostonMay2014/freesurfer.multipecomparisons.ppt|Multiple Comparisons]] ||talk ||Martin Reuter ||
+||11:40 - 12:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.multiplecomparisons.ppt|Multiple Comparisons]] ||talk ||Emily Lindemer ||
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-||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 ||

'''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).
+||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|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 ||Martin Reuter ||
||4:50 - 5:20 ||[[FsTutorial/AnatomicalROI|ROI Analysis Tutorial]] ||tutorial ||staff ||
||6:15 - ? ||Boston Beer Works ||social activity ||staff ||
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-==== Wednesday, September 30th - fMRI / Multimodal /  Diffusion / Future Directions / Q&A ====
+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).

==== Wednesday, September 30th - Multimodal Analysis / fMRI / Diffusion ====
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-||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 ||
+||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.ppt|Multi-Modal Integration, Part 1]] ||talk ||Lilla Zollei ||
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-||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 ||
+||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 || Natalia Zaretskaya ||
||4:15 - 5:15 ||[[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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-==== Thursday, October 1st - Technical talks ====
+==== Thursday, October 1st - Multimodal Analysis / MRI Acquisition Tips / Future Directions ====
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-||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 ||'''Tech talk -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|Registration Methods]] ||talk ||Lilla Zollei ||
+||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 ||
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-||12:50 - 1:20 ||'''Tech talk -''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods for Morphometry]] ||talk ||Andre van der Kouwe ||
||1:20 - 1:50 ||'''Tech talk -''' [[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 ||
+||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 ||


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