[Eeglablist] Save multiple datasets in one .set file? (Lisa Holper)

Fri May 31 12:17:08 PDT 2013

The STUDY function allows you to save multiple set files in to one
accessible file. That function is under pop_study()

On Thu, May 30, 2013 at 1:00 PM, <eeglablist-request at sccn.ucsd.edu> wrote:

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> Today's Topics:
>
>    1. Save multiple datasets in one .set file? (Lisa Holper)
>    2. How to concatenate two datasets in the channel    dimension?
>       (Lisa Holper)
>    3. Extracting average ERSP values for statistical analysis
>       (Nikola Vukovic)
>    4. Re: Electrodes Values (Achim)
>    5. Re: Extracting average ERSP values for statistical        analysis
>       (Makoto Miyakoshi)
>
>
> ---------- Forwarded message ----------
> From: Lisa Holper <holper at ini.phys.ethz.ch>
> To: eeglablist at sccn.ucsd.edu
> Cc:
> Date: Mon, 27 May 2013 13:23:16 -0300
> Subject: [Eeglablist] Save multiple datasets in one .set file?
> Hi all
>
> I have a simple question: How can we save multiple datasets in one .set
> file?
>
> pop_saveset() does not provide this function any more.
>
> Thanks for your tips.
>
> best
> Lisa Holper
>
> --
>
>
> Dr. Lisa Holper
> Biomedical Optics Research Laboratory (BORL)
> Division of Neonatology
> University Hospital Zurich
> Frauenklinikstrasse 10
> 8091 Zurich
> Switzerland
> lisa.holper at usz.ch
> holper at ini.phys.ethz.ch
>
>
>
>
>
>
>
>
> ---------- Forwarded message ----------
> From: Lisa Holper <holper at ini.phys.ethz.ch>
> To: eeglablist at sccn.ucsd.edu
> Cc:
> Date: Mon, 27 May 2013 16:00:29 -0300
> Subject: [Eeglablist] How to concatenate two datasets in the channel
> dimension?
> Hi all
>
> You may advice me in answering the following question.
> Given we have two datasets each containing 128 channels. How would you
> concatenate them in order to end up with 256 channels?
>
> pop_mergeset.m merges two datasets, but in the time dimension, not in the
> channel dimension.
> I hope this in understandable.
>
> thank you in advance.
>
> Lisa Holper
>
> --
>
>
> Dr. Lisa Holper
> Biomedical Optics Research Laboratory (BORL)
> Division of Neonatology
> University Hospital Zurich
> Frauenklinikstrasse 10
> 8091 Zurich
> Switzerland
> lisa.holper at usz.ch
> holper at ini.phys.ethz.ch
>
>
>
>
>
>
>
>
> ---------- Forwarded message ----------
> From: Nikola Vukovic <vukovicnikola at gmail.com>
> To: EEGLAB List <eeglablist at sccn.ucsd.edu>
> Cc:
> Date: Tue, 28 May 2013 04:48:46 +0100
> Subject: [Eeglablist] Extracting average ERSP values for statistical
> analysis
> Dear EEGlab Community,
>
> I wonder if anyone can help me with the following issue:
> From my Study design, I would like to extract (for each participant and
> condition) the average power in a specific frequency band and a specific
> time window. I would like to export these values into SPSS for statistical
> analysis.
> I should also note that I am working with IC Clusters, so the above ERSP
> measures should be cluster specific.
> Does anyone know a script which would help me achieve this?
>
> Yours gratefully,
> Nikola
>
>
> ---------- Forwarded message ----------
> From: "Achim, André" <achim.andre at uqam.ca>
> To: "Barry Oken" <oken at ohsu.edu>, "Eriksen, Jeff :LPH EEG" <
> JEriksen at LHS.ORG>, "Andreas Widmann" <widmann at uni-leipzig.de>, "Arnaud
> Delorme" <arno at ucsd.edu>
> Cc: eeglablist at sccn.ucsd.edu
> Date: Tue, 28 May 2013 12:10:34 -0400
> Subject: Re: [Eeglablist] Electrodes Values
> This discussion is missing the intention for summarizing the simultaneous
> values at all electrodes by a single number. Knowing the intended use would
> indicate whether the current mean is relevant or not. At the peak of a P300
> or a CNV wave, do you want the mean to be ignored or not? As far as I
> remember, GFP discards the mean (i.e. applies the average reference before
> calculating power). If you consider that the mean is relevant, then you
> must provide a baseline for each channel. The system low-pass filter might
> be enough (i.e. you may consider that each channel fluctuates about its own
> zero baseline) but, depending on your intention, the mean value of each
> channel on some remote (but not too remote interval) might be better. In
> EPR studies, often the mean 1.0 or 0.5 s before stimulus onset is used.
>
> The choice of a quantifier must depend on what you want to infer from its
> use. If you intend a conclusion about the neural activation inside the
> brain, you would need to take into account how superficial the various
> sources are. This would get very complex. If you plan to compare children
> with adults or men with women under some conditions, then you may have to
> normalize your scales to equate every subject on some other condition, in
> order to account for attenuation of the scalp EEG by different skull
> thicknesses.
>
> There should be no unique answer to the question initially asked.
>
> André Achim,
> Département de Psychologie
> Université du Québec à Montréal
>
>
> -----Message d'origine-----
> De : eeglablist-bounces at sccn.ucsd.edu [mailto:
> eeglablist-bounces at sccn.ucsd.edu] De la part de Barry Oken
> Envoyé : 22 mai 2013 00:59
> À : Eriksen, Jeff :LPH EEG; Andreas Widmann; Arnaud Delorme
> Cc : eeglablist at sccn.ucsd.edu
> Objet : Re: [Eeglablist] Electrodes Values
>
> For Andreas, the rationale for N-1 in much of statistics is that it gives
> a more unbiased estimate of the parameter in the whole population. If one
> really just wants to know the parameter in one particular sample, be it a
> single EEG or a single group of subjects without thinking about the
> population that it was sampled  from, then, as Jeff commented, N is correct.
> Barry Oken
>
>
> -----Original Message-----
> From: eeglablist-bounces at sccn.ucsd.edu [mailto:
> eeglablist-bounces at sccn.ucsd.edu] On Behalf Of Eriksen, Jeff :LPH EEG
> Sent: Tuesday, May 21, 2013 12:44 PM
> To: Andreas Widmann; Arnaud Delorme
> Cc: eeglablist at sccn.ucsd.edu
> Subject: Re: [Eeglablist] Electrodes Values
>
> All:
>
> I believe we should use N, not N-1. This is a physical quantity, not a
> statistical estimate of some population parameter. If I want the RMS of a
> time series, I use every time sample and divide by the total number of time
> samples. If I want spatial global field power, I want to use all N spatial
> samples as well.
>
> -Jeff Eriksen
>
> -----Original Message-----
> From: eeglablist-bounces at sccn.ucsd.edu [mailto:
> eeglablist-bounces at sccn.ucsd.edu] On Behalf Of Andreas Widmann
> Sent: Tuesday, May 21, 2013 7:19 AM
> To: Arnaud Delorme
> Cc: eeglablist at sccn.ucsd.edu
> Subject: Re: [Eeglablist] Electrodes Values
>
> Dear Arno,
>
> your notion of "small normalization difference" made me curious where this
> definition of GFP might originate. Where is it defined with "N - 1
> normalization"? Also in ERPLAB GFP appears to be implemented according to
> this definition.
>
> However, in the original paper by Lehmann and Skrandies (1980) it is
> either defined as "root of the mean of the squared potential differences
> between all possible electrode pairs" (formula 1A) gfp = sqrt(1 / (2 * 32)
> * sum(sum((repmat(tmp(:, 1), [1 32]) - repmat(tmp(:, 1), [1 32])') .^ 2)))
> (similar to implementation in eeg_gfp.m) or as root mean squared voltage of
> the average referenced data (formula 1B), with gfp_1A = gfp_1B *
> sqrt(nChans).
>
> Also some other papers which explicitly define the term use the latter
> definition (e.g., Brandeis et al., 1992; Roth et al. 1995; Murray et al.,
> 2008; Koenig et al., 2009), that is, normalize by N not N - 1. Shouldn't we
> possibly better use gfp = std(tmp, 1) % GFP normalized by N to compute GFP?
>
> What is the rationale behind N - 1 normalization? Any ideas?
> Thank you! Best,
> Andreas
>
> Am 18.05.2013 um 19:21 schrieb Arnaud Delorme <arno at ucsd.edu>:
>
> > Dear Kleber,
> >
> > one way to get a global measure proportional to microvolt is to use the
> Global Field Power (GFP).
> >
> > http://sccn.ucsd.edu/pipermail/eeglablist/2008/002132.html
> >
> > The root mean square (RMS) value is also sometimes used.
> > The root mean square value on average reference data is similar to the
> GFP (with small normalization difference).
> >
> > tmp = rand(32,10); % simulated data 32 channels 10 points
> > std(tmp) % GFP
> > sqrt(mean(tmp.^2)) % RMS
> > sqrt(sum((tmp-repmat(mean(tmp), [size(tmp,1) 1])).^2)/(size(tmp,1)-1))
> > % RMS on average reference with n-1 normalization (same as GFP)
> >
> > I am not sure RMS on a common reference should be used. Any other
> comments on this appreciated.
> > Thanks,
> >
> > Arno
> >
> > On 16 May 2013, at 15:15, Kleber de Aguiar wrote:
> >
> >> Hello Everyone in this list,
> >>
> >> I would like to know if anyone of you can answer me a doubt about de
> >> reading of the values of a group of electrodes in a EEG exam, as I"ll
> explain bellow:
> >>
> >>
> >> 1- Spliting the EEG recording in slots of time, that I will call them
> >> as "samples";
> >>
> >> 2- Assuming that "n" electrodes were used in this EEG Recording;
> >>
> >> 3 - In every "sample" of the recording, there will have "n"
> >> electrodes values corresponding for each electrodes;
> >>
> >> MY QUESTIONS:
> >>
> >> * How can I sum this electrodes values of the sample in a single
> >> value that represents  the total of microvolts oh that "sample"?
> >>
> >> * How can I describe the values of "y" samples in a single value that
> >> represents these "y" sample values?
> >>
> >>
> >> Best regards,
> >>
> >> Kleber, a fresh researcher in this field.
> >>
> >>
> >>
> >> --
> >> Programa de Engenharia de Sistemas e Computação PESC/COPPE/UFRJ
> >> Visite nossa página web (http://www.cos.ufrj.br)
> >>       ------***------
> >> Kleber de Aguiar
> >> Tecnólogo em Sistemas de Computação
> >> Mestrando em Engenharia de Sistemas e Computação - PESC/COPPE/UFRJ
> >> Tutor Presencial CEDERJ/UAB - Curso de Computação UFF
> >> Twitter: @kleberIAguiar
> >>
> >>
> >> _______________________________________________
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>
>
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>
> ---------- Forwarded message ----------
> From: Makoto Miyakoshi <mmiyakoshi at ucsd.edu>
> To: Nikola Vukovic <vukovicnikola at gmail.com>
> Cc: EEGLAB List <eeglablist at sccn.ucsd.edu>
> Date: Thu, 30 May 2013 11:46:44 -0700
> Subject: Re: [Eeglablist] Extracting average ERSP values for statistical
> analysis
> Dear Nikola,
>
> Follow these steps.
> 1. Open 'edit/plot cluster' and show ERSP/ITC for all clsuters.
> 2. Close 'edit/plot cluster'. This updates the EEGLAB (notice the size
> changes).
> 3. From Matlab workspace, open 'STUDY.cluster(1,a).ersp... ' for clsuter
> a. You'll notice that it is a cell containing nxm contents, and n and m
> corresponds to your variable1 and variable 2 (check this carefully if you
> have 2x2 or 3x3...)
> 4. Your freq and time scales are also located under 'STUDY.cluster(1,a)'
>
> Actually I have answered the same questions more than several times, and
> you may want to check them in the list archive. If you have more questions
> let us know.
>
> Makoto
>
>
> 2013/5/27 Nikola Vukovic <vukovicnikola at gmail.com>
>
>> Dear EEGlab Community,
>>
>> I wonder if anyone can help me with the following issue:
>> From my Study design, I would like to extract (for each participant and
>> condition) the average power in a specific frequency band and a specific
>> time window. I would like to export these values into SPSS for statistical
>> analysis.
>> I should also note that I am working with IC Clusters, so the above ERSP
>> measures should be cluster specific.
>> Does anyone know a script which would help me achieve this?
>>
>> Yours gratefully,
>> Nikola
>>
>> _______________________________________________
>> Eeglablist page: http://sccn.ucsd.edu/eeglab/eeglabmail.html
>> To unsubscribe, send an empty email to
>> eeglablist-unsubscribe at sccn.ucsd.edu
>> For digest mode, send an email with the subject "set digest mime" to
>> eeglablist-request at sccn.ucsd.edu
>>
>
>
>
> --
> Makoto Miyakoshi
> Swartz Center for Computational Neuroscience
> Institute for Neural Computation, University of California San Diego
>
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-- 
Nick Wan
Graduate Student

Multisensory Cognition Lab
Department of Psychology
Utah State University

Phone: 435-554-8788
Blog: truebra.in
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