NIH MEG Short Course 2018: Difference between revisions
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==MEG Short Course Agenda:== |
==MEG Short Course Agenda and Handouts:== |
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=====Monday, August 6th===== |
=====Monday, August 6th===== |
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Building 10 FAES Classroom 3: B1C207 |
Building 10 FAES Classroom 3: B1C207 |
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|12:30 – 1:10 pm ||MEG: The Basics <br/> Fred Carver |
|12:30 – 1:10 pm ||[[Media:MEG_Intro.pdf|MEG: The Basics]] <br/> Fred Carver |
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|1:10 – 1:50 pm || |
|1:10 – 1:50 pm ||[[Media:Intro_to_SAM.pdf|Introduction to Source Localization]]<br/>Tom Holroyd |
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|1:50 – 2:00 pm || Break |
|1:50 – 2:00 pm || Break |
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|2:00 – 2:40 pm ||Instrumentation and Hardware<br/>Stephen Robinson |
|2:00 – 2:40 pm ||[[Media:InstrumentationLecture.pdf|Instrumentation and Hardware]]<br/>Stephen Robinson |
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|2:40 – 3:20 pm ||Applications: What can I do with MEG? <br/> Allison Nugent |
|2:40 – 3:20 pm ||[[Media:MEG_Applications.pdf|Applications: What can I do with MEG?]] <br/> Allison Nugent |
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|3:20 – 3:30 pm ||Final Questions |
|3:20 – 3:30 pm ||Final Questions |
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Building 10 FAES Classroom 3: B1C207 |
Building 10 FAES Classroom 3: B1C207 |
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|12:30 – 12:50 pm || |
|12:30 – 12:50 pm ||[[Media:Tutorial1_DataEditorPreprocessing.pdf|Data Editor and command line Preprocessing]] <br/> Allison Nugent |
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|12:50 – 1:30 pm || |
|12:50 – 1:30 pm ||[[Media:Tutorial2_MRIHeadmodelPreprocessing.pdf|Placing fiducials, headmodel creation]] <br/> Allison Nugent |
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|1:30 – 1:50 pm || |
|1:30 – 1:50 pm ||[[Media:Source_Localization.pdf|Synthetic Aperture Magnetometry Workflow]]<br/> Tom Holroyd |
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|1:50 – 2:00 pm || Break |
|1:50 – 2:00 pm || Break |
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|2:00 – 2:30 pm |
|2:00 – 2:30 pm || Voxel-wise power estimates: sam_cov, sam_wts, sam_3d, and sam_4d <br/> Tom Holroyd |
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|2:30 – 3:00 pm || Induced power: |
|2:30 – 3:00 pm || [[Media:Tutorial5_SAMinducedpower.pdf|Induced power: sam_3dc]] <br/> Fred Carver |
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|3:00 – 3:30 pm || Advanced (and potentially dangerous) topics <br/> Allison Nugent |
|3:00 – 3:30 pm || [[Media:Tutorial6_Connectivity.pdf|Advanced (and potentially dangerous) topics]] <br/> Allison Nugent |
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=====Support tools for the hands-on training sessions===== |
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* Singularity container with the CTF DataEditor tool and the SAMsrc MEG tools running under CentOS 6.9 |
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=====Course Material===== |
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: [https://megcore.nih.gov/MEG/megcore.img Singularity container megcore.img download] |
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* Text editors available within the container for editing shell scripts: vim, nano, gedit |
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: {| width=70% style="border: 1px solid black;" |
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|<u>Usage</u>: singularity shell --bind /data:/mnt/data megcore.img |
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| where the ''/data'' file system holds your CTF data set and mounts under /mnt/data inside the container |
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| (your /home directory and the /tmp file systems are automatically visible inside the container) |
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* Working on the NIH HPC systems |
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: Data are still available in /data/classes/meg, along with all necessary scripts |
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: Modules are now available for SAM (samsrcv3) and CTF (ctf). |
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: To begin: |
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: {| width=70% style="border: 1px solid black;" |
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| Copy the data from /data/classes/meg |
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| Use the initialization script to configure your environment: |
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| $ . init_course.sh |
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---- |
Revision as of 13:53, 9 August 2018
MEG Short Course Agenda and Handouts:
Monday, August 6th
Building 10 FAES Classroom 3: B1C207
12:30 – 1:10 pm | MEG: The Basics Fred Carver |
1:10 – 1:50 pm | Introduction to Source Localization Tom Holroyd |
1:50 – 2:00 pm | Break |
2:00 – 2:40 pm | Instrumentation and Hardware Stephen Robinson |
2:40 – 3:20 pm | Applications: What can I do with MEG? Allison Nugent |
3:20 – 3:30 pm | Final Questions |
Tuesday, August 7th
Building 10 FAES Classroom 3: B1C207
12:30 – 12:50 pm | Data Editor and command line Preprocessing Allison Nugent |
12:50 – 1:30 pm | Placing fiducials, headmodel creation Allison Nugent |
1:30 – 1:50 pm | Synthetic Aperture Magnetometry Workflow Tom Holroyd |
1:50 – 2:00 pm | Break |
2:00 – 2:30 pm | Voxel-wise power estimates: sam_cov, sam_wts, sam_3d, and sam_4d Tom Holroyd |
2:30 – 3:00 pm | Induced power: sam_3dc Fred Carver |
3:00 – 3:30 pm | Advanced (and potentially dangerous) topics Allison Nugent |
Support tools for the hands-on training sessions
- Singularity container with the CTF DataEditor tool and the SAMsrc MEG tools running under CentOS 6.9
- Text editors available within the container for editing shell scripts: vim, nano, gedit
Usage: singularity shell --bind /data:/mnt/data megcore.img where the /data file system holds your CTF data set and mounts under /mnt/data inside the container (your /home directory and the /tmp file systems are automatically visible inside the container)
- Working on the NIH HPC systems
- Data are still available in /data/classes/meg, along with all necessary scripts
- Modules are now available for SAM (samsrcv3) and CTF (ctf).
- To begin:
Copy the data from /data/classes/meg Use the initialization script to configure your environment: $ . init_course.sh