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| === version 6.0 === | === version 7.0+ === Basics: * [[FsTutorial/OutputData_freeview|Introduction to FreeSurfer Output]] === version 6.0+ === |
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| * [[FsTutorial/OutputData_freeview|Introduction to FreeSurfer Output]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.ppt|slides]], [[https://www.youtube.com/watch?v=8Ict0Erh7_c|video]]) * [[FsTutorial/TroubleshootingDataV6.0|Troubleshooting FreeSurfer Output]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.failure_modes.ppt|slides]], [[https://www.youtube.com/watch?v=gf0BC0xs0tM|video]]) * [[FsTutorial/GroupAnalysisV6.0|Group Analysis/ Multiple Comparisons via command-line]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.groupanalysis.ERL.ppt|slides]], [[https://www.youtube.com/watch?v=EJewud8obuo|video]]) |
* [[FsTutorial/OutputData_freeviewV6.0|Introduction to FreeSurfer Output]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.sep2022.pptx|slides]], [[https://www.youtube.com/watch?v=8Ict0Erh7_c|video]]) * [[FsTutorial/PracticeV6.0| Practice Working with Data]] * [[FsTutorial/TroubleshootingDataV6.0|Troubleshooting FreeSurfer Output]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.troubleshooting.sep2022.ppt|slides]], [[https://www.youtube.com/watch?v=gf0BC0xs0tM|video]]) * [[FsTutorial/GroupAnalysisV6.0|Group Analysis]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/GLM.pptx|slides]], [[https://www.youtube.com/watch?v=EJewud8obuo|video]]) * [[FsTutorial/MultipleComparisonsV6.0Perm|Multiple Comparisons via command-line (Permutation)]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/GLM.pptx|slides]]) |
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| * [[FsTutorial/AnatomicalROIV6.0|ROI Analysis]] ( [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.ppt|slides]], [[https://www.youtube.com/watch?v=n5QkCwZZPko|video]]) * [[MultiModalTutorialV6.0|Multimodal Analysis]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part1.ppt|slides- Part 1]], [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.ppt|slides- Part 2]], [[https://www.youtube.com/watch?v=gRl6bYF06hg|video]]) |
* [[FsTutorial/AnatomicalROIV6.0|ROI Analysis]] ( [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.roi.EB_wiki.pptx|slides]], [[https://www.youtube.com/watch?v=n5QkCwZZPko|video]]) * [[MultiModalTutorialV6.0|Multimodal Analysis]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal1_2018.pptx|slides- Part 1]], [[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.multimodal-integration.Part2.pptx|slides- Part 2]], [[https://www.youtube.com/watch?v=gRl6bYF06hg|video]]) |
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| * [[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Processing, Edits and Post-Processing]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|slides]], [[https://www.youtube.com/watch?v=vxJODPBLd3M|video]]) | * [[FsTutorial/LongitudinalTutorial|Longitudinal Processing, Edits and Post-Processing]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.longitudinal.pptx|slides]], [[https://www.youtube.com/watch?v=vxJODPBLd3M|video]]) |
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| * [[FsFastTutorialV6.0|FS-Fast - fMRI Analysis]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.april2011.ppt|slides]]) * [[FsTutorial/FslFeatFreeSurfer|FSL-FreeSurfer Integration (FEAT)]] |
* [[FsFastTutorialV6.0|FS-Fast - fMRI Analysis]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsfast.ppt|slides]]) Other: * [[FsTutorial/MultipleComparisonsV6.0|Multiple Comparisons via command-line]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/multiplecomparisons.ppt|slides]], [[https://www.youtube.com/watch?v=EJewud8obuo|video]]) |
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| === version 5.1 === | === version 5.1/5.3 === Data for the 5.1/5.3 tutorials can be found on the bottom of the [[FsTutorial/Data#FreeSurferTutorialDatasets5.1.2BAC8-5.3|tutorial data]] page. |
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| * [[FsTutorial/OutputData_freeview|Introduction to FreeSurfer Output]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.ppt|slides]], [[https://www.youtube.com/watch?v=8Ict0Erh7_c|video]]) | * [[FsTutorial/OutputData_freeviewV6.0|Introduction to FreeSurfer Output]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/fsrecon.ppt|slides]], [[https://www.youtube.com/watch?v=8Ict0Erh7_c|video]]) |
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| * [[FsTutorial/LongitudinalTutorial_freeview|Longitudinal Processing, Edits and Post-Processing]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|slides]], [[https://www.youtube.com/watch?v=vxJODPBLd3M|video]]) | * [[FsTutorial/LongitudinalTutorialV5|Longitudinal Processing, Edits and Post-Processing]] ([[http://surfer.nmr.mgh.harvard.edu/pub/docs/freesurfer.longitudinal.ppt|slides]], [[https://www.youtube.com/watch?v=vxJODPBLd3M|video]]) |
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| * [[FsTutorial/FslFeatFreeSurfer|FSL-FreeSurfer Integration (FEAT)]] |
FreeSurfer Tutorials
The FreeSurfer tutorials provided below are designed to give users an introduction to using FreeSurfer, as well as get you acquainted with the concepts needed to perform its various modes of analysis and processing of MRI data. The tutorials are designed to be followed along in a terminal window, where commands can be copy/pasted into the terminal window instead of typed.
In order to run any of the FreeSurfer tutorials, you must have a valid FreeSurfer installation on your machine, and a local copy of the tutorial data. Be sure to set the TUTORIAL_DATA environment variable properly as specified on the tutorial data page.
version 7.0+
Basics:
version 6.0+
Basics:
Specialized topics:
Other:
version 5.1/5.3
Data for the 5.1/5.3 tutorials can be found on the bottom of the tutorial data page.
Basics:
Specialized topics:
Longitudinal Processing, Edits and Post-Processing (slides, video)
Diffusion Analysis Diffusion and DTI Integration (slides, video)