Difference between revisions of "NIH MEG Short Course 2018"

From MEG Core
Jump to navigation Jump to search
m
(Removed data directory directions (outdated))
Line 26: Line 26:
 
|}
 
|}
   
=====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]
Line 36: Line 36:
 
|-
 
|-
 
| (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
 
|-
 
 
|}
 
|}
 
----
 
----

Revision as of 15:36, 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)