NIH MEG Short Course 2018: Difference between revisions

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| 7. Tom Holroyd ||[[Media:Source_Localization.pdf|Synthetic Aperture Magnetometry Workflow]]
| 7. Tom Holroyd ||[[Media:Source_Localization.pdf|Synthetic Aperture Magnetometry Workflow]]
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|2:00 – 2:30 pm || Voxel-wise power estimates: sam_cov, sam_wts, sam_3d, and sam_4d <br/> Tom Holroyd
| 8. Tom Holroyd || Voxel-wise power estimates: sam_cov, sam_wts, sam_3d, and sam_4d <br>(''Slides unavailable, but reach out to Tom for more information on this topic'')
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|2:30 – 3:00 pm || [[Media:Tutorial5_SAMinducedpower.pdf|Induced power: sam_3dc]] <br/> Fred Carver
| 9. Fred Carver || [[Media:Tutorial5_SAMinducedpower.pdf|Induced power: sam_3dc]]
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|3:00 – 3:30 pm || [[Media:Tutorial6_Connectivity.pdf|Advanced (and potentially dangerous) topics]] <br/> Allison Nugent
| 10. Allison Nugent || [[Media:Tutorial6_Connectivity.pdf|Advanced (and potentially dangerous) topics]]
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=====Support tools for the hands-on training sessions=====
=====Support tools=====
* Singularity container with the CTF DataEditor tool and the SAMsrc MEG tools running under CentOS 6.9
* Singularity container with the CTF DataEditor tool and the SAMsrc MEG tools running under CentOS 6.9
: [https://megcore.nih.gov/MEG/megcore.img Singularity container megcore.img download]
: [https://megcore.nih.gov/MEG/megcore.img Singularity container megcore.img download]
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| (your /home directory and the /tmp file systems are automatically visible 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:
: {| width=70% style="border: 1px solid black;"
| Copy the data from /data/classes/meg
|-
| Use the initialization script to configure your environment:
|-
| $ . init_course.sh
|-
|}
|}
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Revision as of 15:37, 8 December 2021

MEG Short Course Agenda and Handouts:

This course was held August 6 and 7, 2018 at NIH. The course files are archived below:

1. Fred Carver MEG: The Basics
2. Tom Holroyd Introduction to Source Localization
3. Stephen Robinson Instrumentation and Hardware
4. Allison Nugent Applications: What can I do with MEG?
5. Allison Nugent Data Editor and command line Preprocessing
6. Allison Nugent Placing fiducials, headmodel creation
7. Tom Holroyd Synthetic Aperture Magnetometry Workflow
8. Tom Holroyd Voxel-wise power estimates: sam_cov, sam_wts, sam_3d, and sam_4d
(Slides unavailable, but reach out to Tom for more information on this topic)
9. Fred Carver Induced power: sam_3dc
10. Allison Nugent Advanced (and potentially dangerous) topics
Support tools
  • Singularity container with the CTF DataEditor tool and the SAMsrc MEG tools running under CentOS 6.9
Singularity container megcore.img download
  • 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)
Retrieved from "https://megcore.nih.gov/index.php?title=NIH_MEG_Short_Course_2018&oldid=4798"