MEG RELATED MANUALS
disclaimer: some or all of these may be outdated! Be warned.

My Personal MEG Manuals
 + My MEG manual - Things I do with MEG
 + How To Make Movies - Movies from MEG raw data
 + Drawing MNE MEG with Matlab - manual for matlab MEG
 + How To Digitize 3D Points - specially for good co-registration
Misc. Manuals
 + STC-averaging.pdf - Average MEG group
 + Utilities.pdf - fiff2ascii and geometry
 + tutorial4Dtoolboxv12.pdf - 4Dtoolbox manual

NOTE: Official Neuromag and MNE manuals are available HERE


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FMRI RELATED MANUALS
My Personal FMRI Manual
 + My FMRI manual - The stuff I personally need to know
The Most Up-To-Date fMRI Stuff
 + Freesurfer Wiki - The new online wiki for freesurfer and FSFast
Freesurfer Helpful Documentation
 + upacksdcmdir_help.txt - for raw fMRI unpacking
 + numaris4-protocols.unpackcfg - format info sheet
 + recon-all_help.txt - for freesurfer reconstructions
FS-FAST Helpful Documentation
 + MGH-NMR-StdProc-Handbook.doc - Outdated FS-FAST manual
 + FS-FAST Matlab Documentation - Manuals for matlab script
OTHER TOOLS
Main FSL Documentation 
http://www.fmrib.ox.ac.uk/fsl/
AFNI http://afni.nimh.nih.gov/
Diffusion Tensor Imaging Tools
TBSS (part of FSL) http://www.fmrib.ox.ac.uk/fsl/tbss/index.html
Freediffusion http://www.martinos.org/freediffusion/

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UNIX RELATED MANUALS

My Personal Unix manual
 + My UNIX manual... -  The stuff I think one should know
Synchronizing and backup
 + DesktopBackup.txt - written by NMR helpdesk folks
Firefox unlocking...
Special Firefox trick - when firefox problems come up in linux...

How to burn CDs/DVDs...
 + NOTES.cdwriter -  written by Paul Raines and Toni Harris
Advanced Synchronizing and backup
  + EXTERNAL LINK - written by Mike Rubel


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