[Eeglablist] Problem with Channel Locations (Makoto's Preprocessing Pipeline)

Tue Mar 24 07:21:30 PDT 2020

Hi Meha,

In my case, the channel labels are already there. When I press okay in the first dilalog boz, the second one automatically generates all the coordinates and labels of channels.

I pressed 'cancel' and followed the process suggested by Clement and I think its working. If I face any trouble I will get back to this thread.

Thank you for your time.

-Mahjabeen

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________________________________
From: Meha Fatima <mehafatima1 at gmail.com>
Sent: Tuesday, March 24, 2020 9:58:27 AM
To: Clement Lee <cll008 at eng.ucsd.edu>
Cc: Mahjabeen Rahman <mahjabeen.rahman at Knights.ucf.edu>
Subject: Re: [Eeglablist] Problem with Channel Locations (Makoto's Preprocessing Pipeline)

Hi Mahjabeen,

I can share my practice with you.

When you go to channel locations, and the dialogue box opens, click "ok"
Next it'll open another dialogue box where it'll show channel labels. You may find it empty as it could not retrieve your channel details. Try inserting channel labels manually.
When you're done with manually adding channel labels, press the "look up locs" button (as Clement just mentioned). It'll automatically find locations for your channels.
Press "save as .ced" button as it may return error stating "channel number is not consistent with previous information so for consistency purpose, channel information will be discarded". This happens because it counts the initial channel that was present when the dialogue box was open. So please save it as .ced file. Then close the dialogue box, press OK if you receive the highlighted error.  Then again open channel locations and press the button "read locations". From there, you can open the file you have just saved as .ced. Your channel locations will be available then.
Please correct me if there's any error in this process.
This is what I do and it works for my data. Hope it helps.

Regards.

On Mon, 23 Mar 2020 at 23:06, Clement Lee <cll008 at eng.ucsd.edu<mailto:cll008 at eng.ucsd.edu>> wrote:
Hi Mahjabeen,

When you first import the data into EEGLAB, check channel locations and
click "cancel" instead of "ok" when it asks what templates to use. Likely
the fields will be empty besides the labels - it's possible that EEGLAB
does not import the raw data format properly so the channel information is
lost, or that your manufacturer meant to say "channel labels are already in
the raw data." That means while you do not have to import any files, you
have to look up locations based on a template anyways. Try the MNI template
that is available by default with EEGLAB.

Best,
Clement Lee
Applications Programmer
Swartz Center for Computational Neuroscience
Institute for Neural Computation, UC San Diego
858-822-7535

On Mon, Mar 23, 2020 at 9:07 AM Mahjabeen Rahman <
mahjabeen.rahman at knights.ucf.edu<mailto:mahjabeen.rahman at knights.ucf.edu>> wrote:

> Hello everyone,
>
> I am a novice EEG researcher and not very good at coding. We are using a
> Cognionics system of 10-10 configuration (64 channels). The device
> manufacturer said,  the channel locations are already in the raw data, so
> no need to import any file.  When I try to select BEM DIPFIT model and opt.
> head center, then I am getting the following:
> I dont know if its something to worry about. Our raw data is in .bdf
> format.
>
> "readlocs(): 'elc' format assumed from file extension
> Reading file (lines): 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150
> 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340
> 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530
> 540 550 560 570 580 590 600 610 620 630 640 650 660 670 680 690 698
> readlocs(): 'elc' format assumed from file extension
> Reading file (lines): 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150
> 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340
> 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530
> 540 550 560 570 580 590 600 610 620 630 640 650 660 670 680 690 698
> Radius values: 97.2255 (mean) +/- 11.2354 (std)
> Optimizing center position...
> Wobble too strong ( 12%)! Re-centering data on (1.19058,-16.0254,2.35827)
> Wobble (5.7%) after centering data on (1.19058,-16.0254,2.35827)
> Note: automatically convert XYZ coordinates to spherical and polar
> EEG checkset note for expert users: Noze direction now set to default +X
> in EEG.chanlocs and EEG.dipfit."
>
>  After this message, I  thought I would check if it converted to BEM. So I
> tried edit=>channel locations, it shows coordinates in BESA.   I am really
> stuck here. I think, for this , I am also facing problems in later steps
> (e.g. AMICA,DIPFIT). If anyone with experience helps, I would be grateful.
>
> P.S. If I go with BESA, would that be a problem ?
>
> Thanks in advance,
> Mahjabeen Rahman
> PhD Student
> Industrial Engineering & Management Systems
> University of Central Florida
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[https://docs.google.com/uc?export=download&id=1rnFQ0dt4gcnM4sLKz9MZB8FGfGJhvkgw&revid=0BxQrdo0ZVBJgdVBpWEdBREtnT2JlMnk0QjZsMHduTmQ2cW5rPQ]  Dr. Meha Fatima BSMT, Ph.D.
                                         Assistant Professor
                                         Dow Institute of Medical Technology
                                         Dow University of Health Sciences
                                          mehafatima1 at gmail.com<mailto:mehafatima1 at gmail.com>.