[Mne_analysis] magflat and gradflat in mne_process_raw

[Matti Hamalainen]

Great idea! I forgot that mne_cov2proj exists.

- Matti

On Sep 8, 2012, at 12:12, "Hari Bharadwaj" <hari at nmr.mgh.harvard.edu> wrote:

> Hi Candida,
>   Perhaps you could make SSPs in 2 steps:
> (1) Make a cov file for your blinks using a cov descriptor where you can
> specify flat channel limits
> (2) Use mne_cov2proj
> 
> Regards,
> Hari
> 
> 
> 
> 
> On Sat, September 8, 2012 8:07 am, Matti Hamalainen wrote:
>> 
>> There is no way to specify the "flat" limits on the command line of
>> mne_process_raw, unfortunately.
>> 
>> However, in the Averaging preferences dialog (Adjust menu) of
>> mne_browse_raw there are "no signal" limits  (flat parameters) which
>> affect the interactive computation of the projection operators.
>> 
>> - Matti
>> 
>> On Sep 7, 2012, at 3:46 PM, Candida Jane Maria Ustine wrote:
>> 
>>> Hello,
>>> 
>>> I am working on removing the blink artifact using the PCA in mne. We
>>> have a couple of subjects whose channels go flat for a few seconds(EEG,
>>> MEG, EOG and ECG) including the stimuli. I was wondering if there is a
>>> way to skip that part of the raw.fif file while using the
>>> mne_process_raw command to create an EOG projector.
>>> 
>>> I was wondering if this skip can be done when we create a projector just
>>> like how we can introduce a descriptor file when we are creating
>>> averages using mne_process_raw. I wanted to know of
>>> gradflat/magflat/eegflat parameters can be included in the
>>> mne_process_raw command. (I don't think this option is there in the
>>> mne_browse_raw gui structure.)
>>> 
>>> Do let me know if there is another way of omitting the blank data in the
>>> fif file when creating a projector.
>>> 
>>> Thanks,
>>> Candida
>>> 
>>> --
>>> Candida Jane Maria Ustine M.Eng.
>>> NeuroCognition Lab
>>> Athinoula A. Martinos Center of Biomedical Imaging
>>> Department of Psychiatry - Neurosciences
>>> Massachusetts General Hospital
>>> candida at nmr.mgh.harvard.edu
>>> 
>>> 
>>> The information in this e-mail is intended only for the person to whom
>>> it is addressed. If you believe this e-mail was sent to you in error and
>>> the e-mail contains patient information, please contact the Partners
>>> Compliance HelpLine at http://www.partners.org/complianceline . If the
>>> e-mail was sent to you in error but does not contain patient
>>> information, please contact the sender and properly dispose of the
>>> e-mail.
>>> 
>> 
>> ---------
>> 
>> Matti Hamalainen, Ph.D.
>> Athinoula A. Martinos Center for Biomedical Imaging
>> Massachusetts General Hospital
>> 
>> msh at nmr.mgh.harvard.edu
>> mhamalainen at partners.org
>> 
>> 
>> 
>> 
>> 
>> 
>> _______________________________________________
>> Mne_analysis mailing list
>> Mne_analysis at nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
> 
> 
> -- 
> Hari Bharadwaj
> PhD Candidate, Biomedical Engineering,
> Boston University
> 677 Beacon St.,
> Boston, MA 02215
> 
> Martinos Center for Biomedical Imaging,
> Massachusetts General Hospital
> 149 Thirteenth Street,
> Charlestown, MA 02129
> 
> hari at nmr.mgh.harvard.edu
> Ph: 734-883-5954
> 
> 
>