[Eeglablist] Run REST plugin from the command line

[Arnaud Delorme]

Dear Pancy,

You might also want to check and compare with this other EEGLAB plugin https://urldefense.com/v3/__https://github.com/sccn/REST_fieldtrip__;!!Mih3wA!DcvWdNdc3Aa0gYYIywGrvN8ONR6lqW0oT4080IFszY1iY-koZKGuG0UJ0ErVz_xUN9jmzpdrNYODcM8VDeuwoOku$  which uses DIPFIT to compute the Leadfield matrix.

Arno

> On Jul 31, 2023, at 4:22 AM, Andreas Widmann via eeglablist <eeglablist at sccn.ucsd.edu> wrote:
> 
> Dear Pancy,
> 
> just a brief comment: Currently, the GUI REST eeglab plugin unconditionally re-references to average irrespective whether you select „Average“ or „A fixed electrode“ in the GUI. The relevant code is in lines 218-224 in pop_REST_reref.m. The OrigReferFlag is not used anywhere else in the code. Not sure what it was intended for. Here, with common reference (i.e., fixed) input the results are bit-identical selecting any of both options.
> 
> In rest_refer.m it is commented "The original reference must be average reference.“ So, to my understanding no changes to the command line version should be necessary.
> 
> Best,
> Andreas
> 
>> Am 28.07.2023 um 22:41 schrieb Pancy Pang via eeglablist <eeglablist at sccn.ucsd.edu>:
>> 
>> Dear Cedric, 
>> 
>> Thank you very much for developing these scripts for REST reference, I am looking for way to do it with script and I see your reply just at the moment that I need. I am grateful that you share your work. 
>> 
>> I am now trying to adapt it to my pipeline but I have one question: in the GUI, there is an option for choosing "original reference". I am using a fixed electrode rather than average. How can I specify it in the script? 
>> 
>> Is it this part in ref_infinity.m: 
>> % Ref to average
>> EEG.data = EEG.data - repmat(mean(EEG.data),size(EEG.data,1),1);
>> 
>> How can I change it to a "fixed electrode"? (in the GUI, I don't need to specify which one is the "fixed electrode". I don't know what I should use to replace "mean(EEG.data)" in the above script. The mastoid?)
>> 
>> Best, 
>> Pancy
>> 
>> -----Original Message-----
>> From: Cedric Cannard <ccannard at protonmail.com> 
>> Sent: Saturday, July 15, 2023 11:48 PM
>> To: eeglablist at sccn.ucsd.edu
>> Subject: Re: [Eeglablist] Run REST plugin from the command line
>> 
>> Dear Luisa,
>> 
>> I made a plugin to allow command line referencing with the REST method (same algorithms). See here: <a href="https://urldefense.com/v3/__https://github.com/amisepa/reference_infinity__;!!Mih3wA!FYYICgyeRto26lB5RSytzW9nJbkKzl0Ez3uhqOItkrAoAKW63R-F7lnJti2MAE4ja2_fMG2utwtmL_hGmH7baTNFdQ$">https://urldefense.com/v3/__https://github.com/amisepa/reference_infinity__;!!Mih3wA!BqlgiVyKOdbzJj8umTqTEriqdCqCyQsxHqIKS4o-LjmT9YbMnMpUKZaKGIe8M1_OB5aRmPl317onmBBT5xbL$ </a>
>> 
>> <a href="https://urldefense.com/v3/__https://github.com/amisepa/reference_infinityYou__;!!Mih3wA!FYYICgyeRto26lB5RSytzW9nJbkKzl0Ez3uhqOItkrAoAKW63R-F7lnJti2MAE4ja2_fMG2utwtmL_hGmH7oN_VS4Q$">https://urldefense.com/v3/__https://github.com/amisepa/reference_infinityYou__;!!Mih3wA!BqlgiVyKOdbzJj8umTqTEriqdCqCyQsxHqIKS4o-LjmT9YbMnMpUKZaKGIe8M1_OB5aRmPl317onmIj4CCOP$ </a> can install it via EEGLAB extension manager, there are some examples in the tuto.
>> 
>> Best,
>> 
>> Cedric Cannard, PhD
>> 
>> On Fri, Jul 14, 2023 at 15:54, Luisa Mwole via eeglablist <[eeglablist at sccn.ucsd.edu](mailto:On Fri, Jul 14, 2023 at 15:54, Luisa Mwole via eeglablist <<a href=)> wrote:
>> 
>>> Dear all,
>>> 
>>> Could you please help me with some example code on how to run the REST 
>>> plugin from the command line? I couldn't find any hints on GitHub etc.
>>> Thanks!
>>> 
>>> Kind regards
>>> Luisa Mwole
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