Diff for "FsTutorial/Sept2016CourseSchedule"

Differences between revisions 4 and 10 (spanning 6 versions)

FreeSurfer Course, September 26-29

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 covers basic/beginner material.

Monday, September 26th - Introduction / Single Subject Analysis / ROI Analysis

Time	Title	Type	Lecturer
8:30 - 9:00	** Intro to Linux for FreeSurfer Users	talk/demo	Zeke Kaufman
9:00 - 9:15	** Intro to FreeSurfer Jargon	talk	Allison Stevens & 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 - 11:45	Freeview demonstration	demo	Allison Moreau
11:45 - 12:15	Interaction with Individual Subject Data Tutorial	tutorial	staff
12:15 - 1:15	Lunch (Suggestions for where to eat)	--	--
1:15 - 1:45	Interaction with Individual Subject Data Tutorial	tutorial	staff
1:45 - 2:15	Surface-based Analysis: Intersubject Registration & Smoothing	talk	Doug Greve
2:15 - 2:35	break
2:35 - 3:05	ROI Analysis	talk	Doug Greve
3:05 - 3:55	ROI Analysis Tutorial	tutorial	staff
3:55 - 4:25	** A Non-physicist's Intro to MR (SpinBench)	talk	Dylan Tisdall
4:25 - 4:55	* MRI Acquisition Methods	talk	Andre van der Kouwe

Answers to online questions here

Tuesday, September 27th - Group Analysis / Longitudinal Analysis / Multimodal Analysis

Time	Title	Type	Lecturer
9:00 - 9:50	Group Analysis	talk	Emily Lindemer
9:50 - 10:30	Group Analysis Tutorial	tutorial	staff
10:30 - 10:50	break
10:50 - 11:10	Multiple Comparisons	talk	Doug Greve
11:10 - 11:30	Multiple Comparisons Tutorial	tutorial	staff
11:30 - 11:50	QDEC demonstration	demo	Doug Greve
11:50 - 12:50	Lunch	--	--
12:50 - 1:30	QDEC Tutorial	tutorial	staff
1:30 - 2:15	Longitudinal FreeSurfer see also: LongitudinalProcessing	talk	Lilla Zollei
2:15 - 2:55	Longitudinal Tutorial	tutorial	staff
2:55 - 3:15	break
3:15 - 3:45	FreeSurfer Troubleshooting	talk	Bruce Fischl
3:45 - 4:45	Troubleshooting Tutorial	tutorial	staff
4:45 - 5:45	Quality Checking a Recon	demo	Allison Stevens
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 28th - 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 - 9:45	Multi-Modal Integration, Part 1	talk	Lilla Zollei
9:45 - 10:15	Multi-Modal Integration Tutorial: Multimodal Registration	tutorial	staff
10:15 - 10:35	break
10:35 - 11:15	Introduction to Diffusion MRI	talk	Anastasia Yendiki
11:15 - 12:00	Diffusion Processing Tutorial	tutorial	staff
12:00 - 1:00	Lunch	--	--
4:30 - 5:10	* An Overview of Registration Methods	talk	Lilla Zollei

||1:00 - 2:00 ||TRActs Constrained by UnderLying Anatomy (TRACULA) ||talk ||Anastasia Yendiki

2:00 - 3:00	Tracula Tutorial	tutorial	staff
3:00 - 3:10	Longitudinal TRACULA	talk	Anastasia Yendiki
3:10 - 3:30	break
3:30 - 4:30	Basics of fMRI Analysis	talk	Jon Polimeni

Answers to online questions here

Thursday, September 29th - Multimodal Analysis / Troubleshooting / Future Directions

Time	Title	Type	Lecturer
9:00 - 9:40	FSFAST	talk	Doug Greve
9:40 - 10:00	break
10:00 - 10:40	FSFAST	talk	Doug Greve
10:40 - 11:40	FSFAST Tutorial	tutorial	staff
11:40 - 12:10	Multi-Modal Integration, Part 2	talk	Doug Greve
12:10 - 1:10	Lunch	--	--
1:10 - 2:00	Multi-Modal Integration Tutorial: fMRI Integration & Surface-based Group fMRI Analysis	tutorial	staff
10:30 - 11:00	break & Evaluation
4:45 - 5:15	* Motion-compensated Neuroanatomical Imaging	talk	Dylan Tisdall
2:00 - 2:50	Future Directions	talk	Bruce Fischl
2:50 - 3:00	Question & Answer session	--	staff

Answers to online questions here

FsTutorial/Sept2016CourseSchedule (last edited 2017-09-26 11:31:11 by MorganFogarty)

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-** Indicates an optional talk covering basic/beginner material.
+** Indicates an optional talk covers basic/beginner material.
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-||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 ||
+||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/Unix_tutorial_zjk.pdf|Intro to Linux for FreeSurfer Users]] || talk/demo ||Zeke Kaufman ||
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-||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 ||
||12:00 - 1:00 ||'''Lunch''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/lunch_map.jpg|(Suggestions for where to eat)]] ||-- ||-- ||
||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 ||
+||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 - 12:15 ||[[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''' [[http://surfer.nmr.mgh.harvard.edu/pub/docs/lunch_map.jpg|(Suggestions for where to eat)]] ||-- ||-- ||
||1:15 - 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 ||Doug Greve ||
||2:15 - 2:35 ||'''break''' || || ||
||2:35 - 3:05 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.ppt|ROI Analysis]] ||talk ||Doug Greve ||
||3:05 - 3:55 ||[[FsTutorial/AnatomicalROI|ROI Analysis Tutorial]] ||tutorial ||staff ||
||3:55 - 4:25 ||** [[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 ||
||4:25 - 4:55 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||Andre van der Kouwe ||



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


==== Tuesday, September 27th - Group Analysis / Longitudinal Analysis / Multimodal Analysis ====
||'''Time''' ||'''Title''' ||'''Type''' ||'''Lecturer''' ||
||9:00 - 9:50 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/Copenhagen_Group_Analysis.pptx |Group Analysis]] ||talk ||Emily Lindemer ||
||9:50 - 10:30 ||[[FsTutorial/GroupAnalysis|Group Analysis Tutorial]] ||tutorial ||staff ||
||10:30 - 10:50 ||'''break''' || ||
||10:50 - 11:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.multiplecomparisons.ppt|Multiple Comparisons]] ||talk ||Doug Greve ||
||11:10 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis#ClusterwiseCorrectionforMultipleComparisons|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
||11:30 - 11:50 ||QDEC demonstration ||demo ||Doug Greve ||
||11:50 - 12:50 ||'''Lunch''' ||-- ||-- ||
||12:50 - 1:30 ||[[FsTutorial/QdecGroupAnalysis_freeview|QDEC Tutorial]] ||tutorial ||staff ||
||1:30 - 2:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|Longitudinal FreeSurfer]] see also:'' LongitudinalProcessing '' ||talk ||Lilla Zollei ||
||2:15 - 2:55 ||[[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Tutorial]] ||tutorial ||staff ||
||2:55 - 3:15 ||'''break''' || ||
||3:15 - 3:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.failure_modes.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
||3:45 - 4:45 ||[[FsTutorial/TroubleshootingData|Troubleshooting Tutorial]] ||tutorial ||staff ||
||4:45 - 5:45 ||Quality Checking a Recon ||demo ||Allison Stevens ||
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-==== Tuesday, September 27th - 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]]
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-##[[https://docs.google.com/spreadsheet/viewform?formkey=dGZKM24xb1NpRDRJOHhwdmxCUm9CbFE6MA |The Course Evaluation has been posted. ]] Please feel free to start filling it out!
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-||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 ||
+||9:15 - 9:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.ppt|Multi-Modal Integration, Part 1]] ||talk ||Lilla Zollei ||
||9:45 - 10:15 ||[[FsTutorial/MultiModal_freeview|Multi-Modal Integration Tutorial: Multimodal Registration]] ||tutorial ||staff ||
||10:15 - 10:35 ||'''break''' || ||
||10:35 - 11:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
||11:15 - 12:00 ||[[FsTutorial/Diffusion_DtiIntegration|Diffusion Processing Tutorial]] ||tutorial ||staff ||
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-||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 ||
+||4:30 - 5:10 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Registration Methods]] ||talk ||Lilla Zollei ||
||1:00 - 2:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|TRActs Constrained by UnderLying Anatomy (TRACULA)]] ||talk ||Anastasia Yendiki 
||2:00 - 3:00 ||[[FsTutorial/Tracula|Tracula Tutorial]] ||tutorial ||staff ||
||3:00 - 3:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/tracula,fs.ppt|Longitudinal TRACULA]] ||talk ||Anastasia Yendiki ||
||3:10 - 3:30 ||'''break''' || ||
||3:30 - 4:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Jon Polimeni ||
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-||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 ||
+||9:00 - 9:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST]] ||talk ||Doug Greve ||
||9:40 - 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 - 12:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.ppt|Multi-Modal Integration, Part 2]] ||talk || Doug Greve ||
||12:10 - 1:10 ||'''Lunch''' ||-- ||-- ||
||1:10 - 2:00 ||[[FsTutorial/MultiModal_freeview|Multi-Modal Integration Tutorial: fMRI Integration & Surface-based Group fMRI Analysis]] ||tutorial ||staff ||
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-||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 ||
+||4:45 - 5:15 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_Motion_Correction.pdf|Motion-compensated Neuroanatomical Imaging]] ||talk ||Dylan Tisdall ||