Diff for "FsTutorial/Sept2017CourseSchedule"

Differences between revisions 11 and 33 (spanning 22 versions)

FreeSurfer Course, September 25-28, 2017

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.
*** Indicates extra time to work on tutorials and/or ask questions about your own data.

Monday, September 25th - Introduction / Single Subject Analysis / ROI Analysis

Time	Title	Type	Lecturer
8:30 - 9:00	** Intro to Linux for FreeSurfer Users	talk/demo	Emma Boyd
9:00 - 9:15	** Intro to FreeSurfer Jargon	talk	Caroline Magnain
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	Practice Working with Data	tutorial	staff
4:30 - 5:00	* Running FreeSurfer in the cloud with AWS batch	talk	Paul Wighton

Answers to online questions here

Tuesday, September 26th - Group Analysis / Longitudinal Analysis / Troubleshooting

Time	Title	Type	Lecturer
8:00 - 9:00	*** Optional time to work on tutorials / work on your own data / ask basic questions	--	Emma Boyd
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 - 11:30	Multiple Comparisons	talk	Doug Greve
11:30 - 12:00	Multiple Comparisons Tutorial	tutorial	staff
12:00 - 1:00	Lunch	--	--
1:00 - 1:45	FreeSurfer Troubleshooting	talk	Bruce Fischl
1:45 - 2:45	Troubleshooting Tutorial	tutorial	staff
2:45 - 3:05	break
3:05 - 4:05	Quality Checking a Recon	demo	Allison Stevens
4:05 - 4:50	Longitudinal FreeSurfer see also: LongitudinalTutorial	talk	Lilla Zöllei
4:50 - 5:20	* An Overview of Registration Methods	talk	Lilla Zöllei
5:20 - 6:15	*** Optional time to work on tutorials / work on your own data / ask basic questions	--	Emma Boyd
6:30 - ?	Boston Beer Works	social activity	you!

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, September 27th - Multimodal Analysis / Diffusion Analysis / fMRI Analysis / MR Acquisition

Time	Title	Type	Lecturer
8:00 - 8:30	*** Optional time to work on tutorials / work on your own data / ask basic questions	--	Emma Boyd
8:30 - 9:00	** A Non-physicist's Intro to MR (SpinBench)	talk	Robert Frost
9:00 - 9:30	Multi-Modal Integration, Part 1: Registration	talk	Lilla Zöllei
9:30 - 10:00	Multi-Modal Integration Tutorial, Part 1	tutorial	staff
10:00 - 10:15	** A Non-Physicist's Intro to Diffusion MRI Physics	talk	Robert Frost
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	Isik Karahanoglu
4:20 - 5:20	*** Optional time to work on LongitudinalTutorial	tutorial	staff

Answers to online questions here

Thursday, September 28th - fMRI Analysis / Multimodal Analysis / Future Directions

Time	Title	Type	Lecturer
8:00 - 9:00	*** Optional time to work on tutorials / work on your own data / ask basic questions	--	Emma Boyd
9:00 - 9:30	FSFAST, Part 1: Preprocessing	talk	Doug Greve
9:30 - 10:00	FSFAST Tutorial, Part 1	tutorial	staff
10:00 - 10:20	break & Evaluation
10:20 - 11:20	FSFAST, Part 2: GLM Analysis	talk	Doug Greve
11:20 - 12:00	FSFAST Tutorial, Part 2	tutorial	staff
12:00 - 1:00	Lunch	--	--
1:00 - 1:30	Multi-Modal Integration, Part 2: Group Analysis	talk	Doug Greve
1:30 - 2:15	Multi-Modal Integration Tutorial, Part 2	tutorial	staff
2:15 - 2:45	Resting State fMRI	talk	Doug Greve
2:45 - 3:00	FreeSurfer vs. VBM	talk	Doug Greve
3:00 - 3:15	break
3:15 - 3:45	* MRI Acquisition Methods	talk	André van der Kouwe
3:45 - 4:30	Future Directions	talk	Bruce Fischl
4:30 - 5:00	Question & Answer Session	--	staff

Answers to online questions here

FsTutorial/Sept2017CourseSchedule (last edited 2017-09-28 07:30:36 by AllisonStevens)

-  ⇤ ← Revision 11 as of 2017-09-14 17:04:08 → 
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+   ← Revision 33 as of 2017-09-26 13:15:36 → ⇥
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-Deletions are marked like this.
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 Line 11:
-||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/Unix_tutorial_zjk.pdf|Intro to Linux for FreeSurfer Users]] ||talk/demo || Emma Boyd||
||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsjargon.ppt|Intro to FreeSurfer Jargon]] ||talk || Caroline Magnain ||
+||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/Unix_EB.pptx|Intro to Linux for FreeSurfer Users]] ||talk/demo || Emma Boyd||
||9:00 - 9:15 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/BarcelonaSept2017/fsjargon_EB_clean.ppt|Intro to FreeSurfer Jargon]] ||talk || Caroline Magnain ||
 Line 14:
-||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 ||
+||9:30 - 10:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.intro.sep.2017.ppt|Introduction to Freesurfer]] ||talk ||Bruce Fischl ||
||10:00 - 11:10 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.pptx|Analyzing the Individual Subject]] ||talk ||Doug Greve ||
 Line 25:
-||4:00 - 4:30 ||Practice Working with Data ||tutorial ||staff ||
+||4:00 - 4:30 ||[[https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Practice|Practice Working with Data]] ||tutorial ||staff ||
 Line 38:
-||10:50 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dng.Copenhagen_multiplecomparisons.ppt|Multiple Comparisons]] ||talk ||Doug Greve ||
||11:30 - 11:50 ||[[http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysisV6.0#ClusterwiseCorrectionforMultipleComparisons|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
||11:50 - 12:00 ||QDEC demonstration ||demo ||Doug Greve ||
+||10:50 - 11:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/multiplecomparisons.ppt|Multiple Comparisons]] ||talk ||Doug Greve ||
||11:30 - 12:00 ||[[FsTutorial/MultipleComparisonsV6.0|Multiple Comparisons Tutorial]] ||tutorial ||staff ||
-Line 42:
+Line 41:
-||1:00 - 1:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.troubleshooting.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
+||1:00 - 1:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/Antonia_slides/freesurfer.troubleshooting.ppt|FreeSurfer Troubleshooting]] ||talk ||Bruce Fischl ||
-Line 54:
+Line 53:
-'''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 6:30pm 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).
+'''Boston Beer Works location information [[https://www.beerworks.net/locations-hours|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 6:30pm 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).
-Line 58:
+Line 57:
-||8:00 - 9:00 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
+||8:00 - 8:30 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/IntroMRI.pptx|A Non-physicist's Intro to MR]] ([[http://www.heartvista.com/SpinBench|SpinBench]])'' '' ||talk ||Robert Frost ||
 Line 63:
-||10:35 - 11:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
+||10:35 - 11:15 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BarcelonaSept2017/dmri,fs.ppt|Introduction to Diffusion MRI]] ||talk ||Anastasia Yendiki ||
 Line 70:
-||3:20 - 4:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Jon Polimeni ||
||4:20 - 5:20 ||*** Optional time to work on [[FsTutorial/QdecGroupAnalysisV6.0|QDEC Tutorial]] or [[FsTutorial/LongitudinalTutorial|LongitudinalTutorial]] ||tutorial ||staff ||
+||3:20 - 4:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/BarcelonaSept2017/fMRI_intro.ppt|Basics of fMRI Analysis]] ||talk ||Isik Karahanoglu ||
||4:20 - 5:20 ||*** Optional time to work on [[FsTutorial/LongitudinalTutorial|LongitudinalTutorial]] ||tutorial ||staff ||
 Line 78:
-||8:00 - 8:30 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
||8:30 - 9:00 ||** [[http://surfer.nmr.mgh.harvard.edu/pub/docs/IntroMRI.pptx|A Non-physicist's Intro to MR]] ([[http://www.heartvista.com/SpinBench|SpinBench]])'' '' ||talk ||Robert Frost ||
||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST, Part 1: Preprocessing]] ||talk ||Doug Greve ||
+||8:00 - 9:00 ||*** Optional time to work on tutorials / work on your own data / ask basic questions ||-- || Emma Boyd||
||9:00 - 9:30 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.ppt|FSFAST, Part 1: Preprocessing]] ||talk ||Doug Greve ||
-Line 83:
+Line 82:
-||10:20 - 11:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|FSFAST, Part 2: GLM Analysis]] ||talk ||Doug Greve ||
+||10:20 - 11:20 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.ppt|FSFAST, Part 2: GLM Analysis]] ||talk ||Doug Greve ||
-Line 86:
+Line 85:
-||1:00 - 1:30 ||Resting State fMRI ||talk ||Doug Greve ||
||1:30 - 2:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.pptx|Multi-Modal Integration, Part 2: Group Analysis]] ||talk ||Doug Greve ||
||2:00 - 2:30 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial, Part 2]] ||tutorial ||staff ||
||2:30 - 2:45 ||*!FreeSurfer vs. VBM ||talk ||Doug Greve ||
||2:45 - 3:15 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||André van der Kouwe ||
||3:15 - 4:00 ||Future Directions ||talk ||Bruce Fischl ||
||4:00 - 4:30 ||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: Group Analysis]] ||talk ||Doug Greve ||
||1:30 - 2:15 ||[[MultiModalTutorialV6.0|Multi-Modal Integration Tutorial, Part 2]] ||tutorial ||staff ||
||2:15 - 2:45 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/resting-state.fmri.ppt|Resting State fMRI]] ||talk ||Doug Greve ||
||2:45 - 3:00 ||[[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.vbm.ppt|FreeSurfer vs. VBM]] ||talk ||Doug Greve ||
||3:00 - 3:15 ||'''break''' || || ||
||3:15 - 3:45 ||* [[http://surfer.nmr.mgh.harvard.edu/pub/docs/mri_acquisition.ppt|MRI Acquisition Methods]] ||talk ||André van der Kouwe ||
||3:45 - 4:30 ||Future Directions ||talk ||Bruce Fischl ||
||4:30 - 5:00 ||Question & Answer Session ||-- ||staff ||