[Mne_analysis] Mne_analysis Digest, Vol 123, Issue 17

Dan McCloy drmccloy at uw.edu
Mon Apr 9 15:51:18 EDT 2018
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HI Rani,

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On Mon, Apr 9, 2018 at 10:29 AM, Rani Gupta <raniaiims at gmail.com> wrote:

> Thank you. It is a kind request if you could remove my email from the
> mailing list
>
> With  Regards
>  Rani
>
> On Mon, Apr 9, 2018 at 6:30 AM, <mne_analysis-request at nmr.mgh.harvard.edu>
> wrote:
>
>> Send Mne_analysis mailing list submissions to
>>         mne_analysis at nmr.mgh.harvard.edu
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>> or, via email, send a message with subject or body 'help' to
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>> than "Re: Contents of Mne_analysis digest..."
>>
>>
>> Today's Topics:
>>
>>    1. Re: baseline correction (Gertjan De Mulder)
>>    2. Re: baseline correction (Mainak Jas)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Mon, 9 Apr 2018 13:55:09 +0200
>> From: Gertjan De Mulder <gertjan.demulder at ugent.be>
>> Subject: Re: [Mne_analysis] baseline correction
>> To: mne_analysis at nmr.mgh.harvard.edu
>> Message-ID: <73003d31-e5cb-41a1-b65e-cc0fd23a3601 at Spark>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Hi,
>>
>> The goal is to create Epochs with a baseline correction.
>> Assuming event with id=8 indicates the start of a stimulus with a 40sec
>> duration.
>> The 5 seconds prior to that event (id=8) are considered as the baseline.
>>
>> I would like to know if I understand the epochs-initialization correctly.
>>
>> My parameters for the Epochs constructor are as follows:
>> ?tmin = -5
>> ?tmax = 40
>> ?baseline = (-5, 0)
>>
>> Or is it safer/better to set baseline to (None, 0) ?
>>
>> Conceptually:
>>
>> |----------------------------------------> time
>> |<- 5s ->|<- ? 40 sec ->|
>> ? ? ? ?8
>>
>>
>> Kind Regards,
>> Gertjan
>>
>> On 8 apr. 2018 18:01 +0200, mne_analysis-request at nmr.mgh.harvard.edu,
>> wrote:
>> > Send Mne_analysis mailing list submissions to
>> > mne_analysis at nmr.mgh.harvard.edu
>> >
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>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>> > or, via email, send a message with subject or body 'help' to
>> > mne_analysis-request at nmr.mgh.harvard.edu
>> >
>> > You can reach the person managing the list at
>> > mne_analysis-owner at nmr.mgh.harvard.edu
>> >
>> > When replying, please edit your Subject line so it is more specific
>> > than "Re: Contents of Mne_analysis digest..."
>> >
>> >
>> > Today's Topics:
>> >
>> > 1. Re: Virtual electrode/sensor (Alexandre Gramfort)
>> >
>> >
>> > ----------------------------------------------------------------------
>> >
>> > Message: 1
>> > Date: Sun, 8 Apr 2018 15:55:10 +0200
>> > From: Alexandre Gramfort <alexandre.gramfort at inria.fr
>> > Subject: Re: [Mne_analysis] Virtual electrode/sensor
>> > To: Discussion and support forum for the users of MNE Software
>> > <mne_analysis at nmr.mgh.harvard.edu
>> > Message-ID:
>> > <CADeotZqsYmcX9-uDEohv+29VaS+SK8kaBjB4MsygWKjDSO-R5Q at mail.gmail.com
>> > Content-Type: text/plain; charset="utf-8"
>> >
>> > hi Karin,
>> >
>> > what you call "virtual electrode" is what people commonly refer to as
>> > a beamforming method. We have LCMV and DICS implemented in MNE-Python.
>> > See our examples and documentation on beamforming.
>> > As a side note, I find the term virtual electrode a bit misleading as
>> you
>> > still
>> > need to solve an inverse problem. To me it's just a linear inverse
>> method
>> > among many variants.
>> >
>> > HTH
>> > Alex
>> >
>> >
>> > On Sat, Apr 7, 2018 at 5:38 PM, Karin Westin <karin.westin85 at gmail.com
>> > wrote:
>> >
>> > > Hi everyone!
>> > >
>> > > I'm currently working on source localization of epileptic spikes in
>> MEG
>> > > data, and I would like to create a "virutal sensor", ie a signal with
>> the
>> > > same appereance as if one were to put a sensor exactly in the region
>> > > creating the epileptic spikes. I know that this is possible using
>> Matlab
>> > > Field Trip, but is there an (easy) way of doing it using MNE Python
>> instead?
>> > >
>> > > Thanks and best,
>> > >
>> > > Karin
>> > >
>> > > _______________________________________________
>> > > Mne_analysis mailing list
>> > > Mne_analysis at nmr.mgh.harvard.edu
>> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>> > >
>> > >
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>> whom it
>> > > is
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>> > > e-mail
>> > > contains patient information, please contact the Partners Compliance
>> > > HelpLine at
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>> > > error
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>> >
>> > _______________________________________________
>> > Mne_analysis mailing list
>> > Mne_analysis at nmr.mgh.harvard.edu
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>>
>> ------------------------------
>>
>> Message: 2
>> Date: Mon, 9 Apr 2018 14:30:28 +0200
>> From: Mainak Jas <mainakjas at gmail.com>
>> Subject: Re: [Mne_analysis] baseline correction
>> To: Discussion and support forum for the users of MNE Software
>>         <mne_analysis at nmr.mgh.harvard.edu>
>> Message-ID:
>>         <CANzrpG0+kkHxRUhVvCE-wGcUp0r2_4ZM=11jK1AqnmyUNSGNDw at mail.
>> gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Hi,
>>
>> They should be the same but I would use (None, 0) because it would work
>> even if you change tmin. Otherwise, no difference.
>>
>> Mainak
>>
>> On Mon, Apr 9, 2018 at 1:55 PM, Gertjan De Mulder <
>> gertjan.demulder at ugent.be
>> > wrote:
>>
>> > Hi,
>> >
>> > The goal is to create Epochs with a baseline correction.
>> > Assuming event with id=8 indicates the start of a stimulus with a 40sec
>> > duration.
>> > The 5 seconds prior to that event (id=8) are considered as the baseline.
>> >
>> > I would like to know if I understand the epochs-initialization
>> correctly.
>> >
>> > My parameters for the Epochs constructor are as follows:
>> > tmin = -5
>> > tmax = 40
>> > baseline = (-5, 0)
>> >
>> > Or is it safer/better to set baseline to (None, 0) ?
>> >
>> > Conceptually:
>> >
>> > |----------------------------------------> time
>> > |<- 5s ->|<-   40 sec ->|
>> >        8
>> >
>> >
>> > Kind Regards,
>> > Gertjan
>> >
>> > On 8 apr. 2018 18:01 +0200, mne_analysis-request at nmr.mgh.harvard.edu,
>> > wrote:
>> >
>> > Send Mne_analysis mailing list submissions to
>> > mne_analysis at nmr.mgh.harvard.edu
>> >
>> > To subscribe or unsubscribe via the World Wide Web, visit
>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>> > or, via email, send a message with subject or body 'help' to
>> > mne_analysis-request at nmr.mgh.harvard.edu
>> >
>> > You can reach the person managing the list at
>> > mne_analysis-owner at nmr.mgh.harvard.edu
>> >
>> > When replying, please edit your Subject line so it is more specific
>> > than "Re: Contents of Mne_analysis digest..."
>> >
>> >
>> > Today's Topics:
>> >
>> > 1. Re: Virtual electrode/sensor (Alexandre Gramfort)
>> >
>> >
>> > ----------------------------------------------------------------------
>> >
>> > Message: 1
>> > Date: Sun, 8 Apr 2018 15:55:10 +0200
>> > From: Alexandre Gramfort <alexandre.gramfort at inria.fr
>> > Subject: Re: [Mne_analysis] Virtual electrode/sensor
>> > To: Discussion and support forum for the users of MNE Software
>> > <mne_analysis at nmr.mgh.harvard.edu
>> > Message-ID:
>> > <CADeotZqsYmcX9-uDEohv+29VaS+SK8kaBjB4MsygWKjDSO-R5Q at mail.gmail.com
>> > Content-Type: text/plain; charset="utf-8"
>> >
>> > hi Karin,
>> >
>> > what you call "virtual electrode" is what people commonly refer to as
>> > a beamforming method. We have LCMV and DICS implemented in MNE-Python.
>> > See our examples and documentation on beamforming.
>> > As a side note, I find the term virtual electrode a bit misleading as
>> you
>> > still
>> > need to solve an inverse problem. To me it's just a linear inverse
>> method
>> > among many variants.
>> >
>> > HTH
>> > Alex
>> >
>> >
>> > On Sat, Apr 7, 2018 at 5:38 PM, Karin Westin <karin.westin85 at gmail.com
>> > wrote:
>> >
>> > Hi everyone!
>> >
>> > I'm currently working on source localization of epileptic spikes in MEG
>> > data, and I would like to create a "virutal sensor", ie a signal with
>> the
>> > same appereance as if one were to put a sensor exactly in the region
>> > creating the epileptic spikes. I know that this is possible using Matlab
>> > Field Trip, but is there an (easy) way of doing it using MNE Python
>> > instead?
>> >
>> > Thanks and best,
>> >
>> > Karin
>> >
>> > _______________________________________________
>> > Mne_analysis mailing list
>> > Mne_analysis at nmr.mgh.harvard.edu
>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>> >
>> >
>> > 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.
>> >
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>> >
>> > _______________________________________________
>> > Mne_analysis mailing list
>> > Mne_analysis at nmr.mgh.harvard.edu
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>> >
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>> >
>> >
>> > _______________________________________________
>> > Mne_analysis mailing list
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>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
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>> >
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>>
>
>
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