[Mne_analysis] EGI sensor layout

Jaakko Leppakangas jaeilepp at gmail.com
Wed Feb 15 02:32:14 EST 2017
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I believe that the problem here was actually the montage reader. The
channel names were read incorrectly in mne versions 0.12 and older, causing
duplicate channel names. So updating mne to the latest version should fix
the problem. The workflow looks correct.

HTH
-Jaakko

On Tue, Feb 14, 2017 at 10:01 PM, Aaron Newman <Aaron.Newman at dal.ca> wrote:

> Hi Emily
>
> The plot you showed from MNE in your original post is the layout map for
> the much-older GSN 200 2.1 nets. For the past many years (decade?) EGI has
> sold the HCGSN nets, which have a slightly different layout (as shown in
> the "official" EGI layout you attached). As you noticed, a telltale sign is
> whether the bottom-most centre electrode in the layout map is 81 (new) or
> 82 (old).
>
> I haven't tried importing EGI data into MNE yet, so I can't speak directly
> to your issue. However I do know that EEGLAB for years (and possibly still)
> by default uses the old layout when using their EGI importer. The EEGLAB
> folks did, however, post a layout map file for the new HCGSN configuration,
> which you can find at https://sccn.ucsd.edu/bugzilla/show_bug.cgi?id=1643
> It should be in a standard format that hopefully MNE recognizes, or could
> be adapted pretty easily. Getting EGI data into MNE has been on my to-do
> list but I haven't tried it yet!
>
> Best,
> Aaron
>
> On Tue, 14 Feb 2017 at 12:55 Emily Ruzich <Emily.Ruzich at neuro.gu.se>
> wrote:
>
>> Hi Jaakko,
>>
>> I think we may have resolved this? The updated code is
>>
>> file = '/Users/delfin/Documents/RPKPILOT/RAW/PILOT002_GONOGO.set'
>> ### read channel names and get raw data
>> mon = mne.channels.read_montage('GSN-HydroCel-128')
>> raw = mne.io.read_raw_eeglab(file, preload=True)
>> raw.set_montage(mon) ## !!
>> ### look at channels
>> mne.viz.plot_sensors(raw.info, show_names=True)
>> raw.plot_sensors(show_names=True)
>> raw.plot_sensors('3d')
>>
>> Sorry for any confusion! Hopefully we are correct and this is the right
>> layout!
>>
>> ------------------------------
>> *From:* mne_analysis-bounces at nmr.mgh.harvard.edu [
>> mne_analysis-bounces at nmr.mgh.harvard.edu] on behalf of Jaakko
>> Leppakangas [jaeilepp at gmail.com]
>> *Sent:* Tuesday, February 14, 2017 3:14 PM
>> *To:* Discussion and support forum for the users of MNE Software
>> *Subject:* Re: [Mne_analysis] EGI sensor layout
>>
>> Hi Emily,
>>
>> I'm unable to replicate this. Looks like some channels are missing from
>> your plot. Can you copy-paste the commands you run to plot this figure?
>>
>> -Jaakko
>>
>> On Tue, Feb 14, 2017 at 2:28 PM, Emily Ruzich <Emily.Ruzich at neuro.gu.se>
>> wrote:
>>
>> Hello all,
>>
>> I have a question about the sensor layout map for EGI hydrocel sensor
>> nets.
>>
>> I have been studying the two figures attached - one is the 128 channel
>> map provided by EGI, the other is the sensor positions determined by using
>> the commands mne.channels.read_montage('GSN-HydroCel-128') and
>> mne.viz.plot_sensors.
>>
>> While there are similarities, some definite differences exist - notably,
>> 81 has shifted from the occipital midline to close to the vertex. Has this
>> been addressed before? And if so, what is the advice you recommend?
>>
>> Many thanks!
>> Emily
>>
>>
>>
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> --
>
> Aaron J Newman, PhD
>
> Professor
>
> Director, RADIANT CREATE Neurotechnology Innovation Training Program
>
> Director, NeuroCognitive Imaging Lab (NCIL)
>
> FACULTY OF SCIENCE
>
> Department of Psychology & Neuroscience
>
> FACULTY OF MEDICINE
>
> Departments of Pediatrics, Psychiatry, and Surgery
>
> Aaron.Newman at dal.ca
>
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