Diff for "FsTutorial/April2017CourseSchedule"

Differences between revisions 6 and 17 (spanning 11 versions)

FreeSurfer Course, April 3-6

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.

Monday, April 3rd - Introduction / Single Subject Analysis / ROI Analysis / MR Acquisition

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 Zöllei
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	Andrew Hoopes
11:45 - 12:15	Interaction with Individual Subject Data Tutorial	tutorial	staff
12:15 - 1:15	Lunch (Suggestions for where to eat)	--	--
1:15 - 1:30	Interaction with Individual Subject Data Tutorial	tutorial	staff
1:30 - 2:00	Surface-based Analysis: Intersubject Registration & Smoothing	talk	Lilla Zöllei
2:00 - 2:20	break
2:20 - 3:20	ROI Analysis	talk	Doug Greve
3:20 - 4:00	ROI Analysis Tutorial	tutorial	staff
4:00 - 4:30	** A Non-physicist's Intro to MR (SpinBench)	talk	Robert Frost
4:30 - 5:00	* Running FreeSurfer in the cloud with AWS batch	talk	Paul Wighton

Answers to online questions here

Tuesday, April 4th - Group Analysis / Longitudinal Analysis / Troubleshooting

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 Zöllei
2:15 - 2:45	Longitudinal Tutorial	tutorial	staff
2:45 - 3:15	FreeSurfer Troubleshooting	talk	Bruce Fischl
3:15 - 3:35	break
3:35 - 4:35	Troubleshooting Tutorial	tutorial	staff
4:35 - 5:35	Quality Checking a Recon	demo	Allison Stevens
6:30 - ?	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 6:30pm 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 5th - Multimodal Analysis / Diffusion Analysis / fMRI Analysis

Time	Title	Type	Lecturer
9:00 - 9:30	Multi-Modal Integration, Part 1: Registration	talk	Lilla Zöllei
9:30 - 10:00	Multi-Modal Integration Tutorial: Multimodal Registration	tutorial	staff
10:00 - 10:15	** A Non-Physicist's Intro to Diffusion MRI Physics	talk	Dylan Tisdall
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	--	--
1:00 - 1:50	TRActs Constrained by UnderLying Anatomy (TRACULA)	talk	Anastasia Yendiki
1:50 - 2:50	Tracula Tutorial	tutorial	staff
2:50 - 3:00	Longitudinal TRACULA	talk	Anastasia Yendiki
3:00 - 3:20	break
3:20 - 4:20	Basics of fMRI Analysis	talk	Jon Polimeni
4:20 - 4:50	* MRI Acquisition Methods	talk	André van der Kouwe

Answers to online questions here

Thursday, April 6th - fMRI Analysis / Multimodal Analysis / Future Directions

Time	Title	Type	Lecturer
9:00 - 10:00	FSFAST, Part 1: Preprocessing	talk	Doug Greve
10:00 - 10:30	FSFAST Tutorial, Part 1	tutorial	staff
10:30 - 10:50	break & Evaluation
10:50 - 11:20	FSFAST, Part 2: GLM Analysis	talk	Doug Greve
11:20 - 12:00	FSFAST Tutorial	tutorial	staff
12:00 - 1:00	Lunch	--	--
1:00 - 1:30	Multi-Modal Integration, Part 2	talk	Doug Greve
1:30 - 2:00	Multi-Modal Integration Tutorial: fMRI Integration & Surface-based Group fMRI Analysis	tutorial	staff
2:00 - 2:30	* An Overview of Registration Methods	talk	Lilla Zöllei
2:30 - 3:00	Future Directions	talk	???

Answers to online questions here

FsTutorial/April2017CourseSchedule (last edited 2017-09-26 11:42:08 by MorganFogarty)

-  ⇤ ← Revision 6 as of 2017-03-23 14:38:08 → 
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  Editor: AndrewHoopes
  Comment: updated multimodal tut to v6
+   ← Revision 17 as of 2017-03-30 13:36:48 → ⇥
  Size: 8835
  Editor: AllisonStevens
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
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-||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.ppt|Intro to FreeSurfer Jargon]] ||talk ||Allison Stevens & Lilla Z&#246;llei ||
+||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.ppt|Intro to FreeSurfer Jargon]] ||talk ||Allison Stevens & Lilla Zöllei ||
 Line 17:
-||11:30 - 11:45 ||Freeview demonstration ||[[FsTutorial/FreeviewDemo|demo]] ||??||
+||11:30 - 11:45 ||Freeview demonstration ||[[FsTutorial/FreeviewDemo|demo]] ||Andrew Hoopes||
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-||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 ||Lilla Z&#246;llei ||
||2:15 - 2:35 ||'''break''' || || ||
||2:35 - 3:05 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.pptx|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 ||?? ||
||4:25 - 4:55 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||Andr&#233; van der Kouwe ||
||4:55 - 5:15 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Apr_2013_Motion_Correction.pdf|Motion-compensated Neuroanatomical Imaging]] ||talk ||?? ||
+||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 ||Lilla Zöllei ||
||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 ||** [[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 ||Robert Frost ||
||4:30 - 5:00 ||* Running !FreeSurfer in the cloud with AWS batch ||talk ||Paul Wighton ||
-Line 35:
+Line 34:
-||9:50 - 10:30 ||[[FsTutorial/GroupAnalysis|Group Analysis Tutorial]] ||tutorial ||staff ||
+||9:50 - 10:30 ||[[FsTutorial/GroupAnalysisV6.0|Group Analysis Tutorial]] ||tutorial ||staff ||
-Line 38:
+Line 37:
-||11:10 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis#ClusterwiseCorrectionforMultipleComparisons|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
+||11:10 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysisV6.0#ClusterwiseCorrectionforMultipleComparisons|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
-Line 41:
+Line 40:
-||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.pptx|Longitudinal FreeSurfer]] see also:'' LongitudinalProcessing '' ||talk ||Lilla Z&#246;llei ||
||2:15 - 2:55 ||[[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Tutorial]] ||tutorial ||staff ||
||2:55 - 3:25 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.failure_modes.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
||3:25 - 3:45 ||'''break''' || ||
||3:45 - 4:45 ||[[FsTutorial/TroubleshootingData|Troubleshooting Tutorial]] ||tutorial ||staff ||
||4:45 - 5:45 ||Quality Checking a Recon ||demo ||Allison Stevens ||
+||12:50 - 1:30 ||[[FsTutorial/QdecGroupAnalysisV6.0|QDEC Tutorial]] ||tutorial ||staff ||
||1:30 - 2:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.longitudinal.pptx|Longitudinal FreeSurfer]] see also:'' LongitudinalProcessing '' ||talk ||Lilla Zöllei ||
||2:15 - 2:45 ||[[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Tutorial]] ||tutorial ||staff ||
||2:45 - 3:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.failure_modes.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
||3:15 - 3:35 ||'''break''' || ||
||3:35 - 4:35 ||[[FsTutorial/TroubleshootingDataV6.0|Troubleshooting Tutorial]] ||tutorial ||staff ||
||4:35 - 5:35 ||Quality Checking a Recon ||demo ||Allison Stevens ||
-Line 57:
+Line 56:
-||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.pptx|Multi-Modal Integration, Part 1: Registration]] ||talk ||Lilla Z&#246;llei ||
||9:30 - 10:00 ||[[FsTutorial/MultiModalV6.0|Multi-Modal Integration Tutorial: Multimodal Registration]] ||tutorial ||staff ||
||10:00 - 10:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/FreeSurfer_Course_Sep_2015_Diffusion.pdf|A Non-Physicist's Intro to Diffusion MRI Physics]] '' '' ||talk ||?? ||
+||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.pptx|Multi-Modal Integration, Part 1: Registration]] ||talk ||Lilla Zöllei ||
||9:30 - 10:00 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial: Multimodal Registration]] ||tutorial ||staff ||
||10:00 - 10:15 ||** [[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 ||
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-||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 ||
||4:30 - 5:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST, Part 1: Preprocessing]] ||talk ||Doug Greve ||
+||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/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Jon Polimeni ||
||4:20 - 4:50 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||André van der Kouwe ||
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-||9:00 - 9:40 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST, Part 2: GLM Analysis]] ||talk ||Doug Greve ||
||9:40 - 10:40 ||[[FsFastTutorialV6.0|FSFAST Tutorial]] ||tutorial ||staff ||
||10:40 - 11:00 ||'''break''' & Evaluation || ||
||11:00 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.pptx|Multi-Modal Integration, Part 2]] ||talk ||Doug Greve ||
||11:30 - 12:00 ||[[FsTutorial/MultiModalV6.0|Multi-Modal Integration Tutorial: fMRI Integration & Surface-based Group fMRI Analysis]] ||tutorial ||staff ||
+||9:00 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST, Part 1: Preprocessing]] ||talk ||Doug Greve ||
||10:00 - 10:30 ||[[FsFastTutorialV6.0|FSFAST Tutorial, Part 1]] ||tutorial ||staff ||
||10:30 - 10:50 ||'''break''' & Evaluation || ||
||10:50 - 11:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST, Part 2: GLM Analysis]] ||talk ||Doug Greve ||
||11:20 - 12:00 ||[[FsFastTutorialV6.0|FSFAST Tutorial]] ||tutorial ||staff ||
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-||1:00 - 1:40 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Registration Methods]] ||talk ||Lilla Z&#246;llei ||
||1:40 - 2:25 ||Future Directions ||talk ||Bruce Fischl ||
||2:25 - 2:45 ||Question & Answer Session ||-- ||staff ||
+||1:00 - 1:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.pptx|Multi-Modal Integration, Part 2]] ||talk ||Doug Greve ||
||1:30 - 2:00 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial: fMRI Integration & Surface-based Group fMRI Analysis]] ||tutorial ||staff ||
||2:00 - 2:30 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt|An Overview of Registration Methods]] ||talk ||Lilla Zöllei ||
||2:30 - 3:00 ||Future Directions ||talk ||??? ||
##||2:25 - 2:45 ||Question & Answer Session ||-- ||staff ||