[Mne_analysis] using SSP projections for eye blink correction and mne_process raw

David Leitman leitman at mail.med.upenn.edu
Fri May 23 12:48:58 EDT 2014
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Thanks
Alex this helps
Sent from my iPhone

> On May 23, 2014, at 12:01 PM, Alexandre Gramfort <alexandre.gramfort at telecom-paristech.fr> wrote:
> 
> hi David,
> 
>> My question is regarding the  settings : " --projmagrej 4000  --projgradrej
>> 3000 --projeegrej 500" what do these setting lmits mean:
>> calling the help I get the following:
> 
> it's like reject param in Python. Peak to peak difference rejection values
> by channel type.
> 
> --projmagrej 4000
> 
> means igore the epoch/event during which a magnetometer not marked
> as bad as a peak to peak difference bigger than 4000 fT
> 
>> does this mean rejecting an an eyeblink event above the listed value? If so
>> they seem low. Given that these levels are subjecto the recording
>> environment/ noise, Are my limits (--projmagrej 4000  --projgradrej 3000
>> --projeegrej 500) good ?
> 
> yes it sounds reasonable. You need to try on your data and see with
> mne_analyze if the SSP vector computed does the job.
> 
> btw you can compute these SSP vectors from Python.
> 
> see:
> 
> mne.preprocessing.compute_proj_eog
> 
> and the command line tool which usage could be like this:
> 
> mne compute_proj_eog -i sample_audvis_raw.fif --l-freq 1 --h-freq 35
> --rej-grad 3000 --rej-mag 4000 --rej-eeg 500
> 
> HTH
> Alex
> 
>> For reference my rejection criteria when epoching and averaging my  data are
>> the following :
>> 
>> grad= 9e-11, # T / m (gradiometers)
>> mag = 4.0e-12, # T (magnetometers)
>> eeg =150e-6, # (eeg channels)
>> 
>> 
>> Thanks !
>> 
>> Dave
>> 
>> 
>> 
>> 
>> 
>> 
>> David I. Leitman PhD
>> 
>> Research Assistant Professor
>> Department of Psychiatry-
>> Neuropsychiatry program
>> Perelman School of Medicine
>> University of Pennsylvania
>> Gates Pavilion 10th floor room 1042
>> 3400 Spruce St
>> Philadelphia, PA 19104-4283
>> P: (215) 662-7389
>> F: (215) 662-7903
>> E: leitman at mail.med.upenn.edu
>> Faculty page: http://www.med.upenn.edu/apps/faculty/index.php/g275/p8174343
>> Lab website:
>> http://davidileitman.com
>> 
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