[FieldTrip] fieldtrip Digest, Vol 136, Issue 19

Mon Mar 21 13:11:20 CET 2022

Jan.

The recommendation below to use templates from the FT is a good one.  If your participants are not "young adults", two things.

1--I have a "Neurodevelopmental MRI Database (NDD)" that has average MRI templates for a wide range of ages; from 2 wks through 89 years of age.  If you have a young adult sample the FT templates will work as well as any template on the NDD.  If you are using a wide range of ages, or have older adults or infants/children, an "age-appropriate" average template works better than the standard adult template.  There are electrode placement files, FEM and BEM segmentations, etc.  However, we do not have electrode placement files for 64-channel systems, though they can be estimated.  We have the EGI HGSN and GSN net placements with accurate electrode placements. We have 10-10 electrode placements with 81 channels--if your electrodes are a subset of the 81-channel 10-10 systems these would work for you.

2--Stefania Conte and I have a recent article describing the use of our system for infant particpants; 
Conte, S., & Richards, J.E. (2022). Cortical source analysis of event-related potentials: A developmental approach. Developmental Cognitive Neuroscience, 54, https://doi.org/10.1016/j.dcn.2022.101092

John

***********************************************
John E. Richards
Carolina Distinguished Professor
Department of Psychology
University of South Carolina
Columbia, SC  29208
Dept Phone: 803 777 2079
Fax: 803 777 9558
Email: richards-john at sc.edu
https://jerlab.sc.edu
*************************************************

-----Original Message-----
From: fieldtrip <fieldtrip-bounces at science.ru.nl> On Behalf Of fieldtrip-request at science.ru.nl
Sent: Monday, March 21, 2022 7:00 AM
To: fieldtrip at science.ru.nl
Subject: fieldtrip Digest, Vol 136, Issue 19

Send fieldtrip mailing list submissions to
	fieldtrip at science.ru.nl

To subscribe or unsubscribe via the World Wide Web, visit
	https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
or, via email, send a message with subject or body 'help' to
	fieldtrip-request at science.ru.nl

You can reach the person managing the list at
	fieldtrip-owner at science.ru.nl

When replying, please edit your Subject line so it is more specific than "Re: Contents of fieldtrip digest..."

Today's Topics:

   1. Using default head and source models for source
      reconstruction (Jan Ostrowski)
   2. Re: Using default head and source models for source
      reconstruction (mikkelcv at drcmr.dk)

----------------------------------------------------------------------

Message: 1
Date: Mon, 21 Mar 2022 10:06:21 +0100
From: Jan Ostrowski <j.ostrowski at uke.de>
To: <fieldtrip at science.ru.nl>
Subject: [FieldTrip] Using default head and source models for source
	reconstruction
Message-ID: <fa0d05bd-5c3a-3769-370d-e84f5e9be5c7 at uke.de>
Content-Type: text/plain; charset="utf-8"; format="flowed"

Hi there,

my name is Jan Ostrowski and I am working on crossmodal memory. I conducted a study using a 64-Channel EEG setup, and would like to explore the data using Fieldtrip's source reconstruction functionality. 
However, due to my study design, I did not acquire individual MRI images for solving the forward problem.

I'd like to know if it is possible to use some default templates for that, as all tutorials assume that one has MRI images to work with. If it is possible, then what templates should I use and how would I implement it? As in: What steps of the process described in the tutorials could I skip?

I understand that using default templates will make the results of the source reconstruction less precise, and I am well aware that one should be cautious when interpreting that. This is, however, going to be an additional, exploratory analysis.

Any help with this is greatly appreciated!

Best,
Jan Ostrowski

--
Jan Ostrowski, M.Sc.
Department of Systems Neuroscience
University Medical Center Hamburg-Eppendorf Martinistr. 52 Building W34, Room 320b
D-20246 Hamburg, Germany

--

_____________________________________________________________________

Universitätsklinikum Hamburg-Eppendorf; Körperschaft des öffentlichen Rechts; Gerichtsstand: Hamburg | https://protect2.fireeye.com/v1/url?k=31323334-501d2dca-31327df5-454455534531-dafe2836de562509&q=1&e=718bde04-150b-4731-94bb-fa6a68094807&u=http%3A%2F%2Fwww.uke.de%2F
Vorstandsmitglieder: Prof. Dr. Burkhard Göke (Vorsitzender), Joachim Prölß, Prof. Dr. Blanche Schwappach-Pignataro, Marya Verdel _____________________________________________________________________

SAVE PAPER - THINK BEFORE PRINTING

------------------------------

Message: 2
Date: Mon, 21 Mar 2022 09:16:28 +0000
From: "mikkelcv at drcmr.dk" <mikkelcv at drcmr.dk>
To: FieldTrip discussion list <fieldtrip at science.ru.nl>
Cc: Jan Ostrowski <j.ostrowski at uke.de>
Subject: Re: [FieldTrip] Using default head and source models for
	source reconstruction
Message-ID:
	<AM0PR10MB34434D453D319EF4196B27FFA8169 at AM0PR10MB3443.EURPRD10.PROD.OUTLOOK.COM>

Content-Type: text/plain; charset="windows-1252"

Hi Jan

If you are using a standard EEG layout, then it is not problem to use a template MRI and source space (beyond the inherent discrepancy between the template anatomy and the actual subject’s anatomy). There is a short tutorial on using templates for source reconstruction here: https://protect2.fireeye.com/v1/url?k=31323334-501d2dca-31327df5-454455534531-cae77c63fd0ec270&q=1&e=718bde04-150b-4731-94bb-fa6a68094807&u=https%3A%2F%2Fwww.fieldtriptoolbox.org%2Ftemplate%2Fsourcemodel%2F

If you got FieldTrip from Git, then you already should have a lot of templates that you can use right out of the box. You can see them here: https://protect2.fireeye.com/v1/url?k=31323334-501d2dca-31327df5-454455534531-f3d1a749c2ca4df5&q=1&e=718bde04-150b-4731-94bb-fa6a68094807&u=https%3A%2F%2Fgithub.com%2Ffieldtrip%2Ffieldtrip%2Ftree%2Fmaster%2Ftemplate

The only issues is to make sure that your EEG layout and the template MRI are in the same coordinate system. That you can find how to do on the regular source reconstruction tutorials, e.g.: https://protect2.fireeye.com/v1/url?k=31323334-501d2dca-31327df5-454455534531-0eb54983b883ae2d&q=1&e=718bde04-150b-4731-94bb-fa6a68094807&u=https%3A%2F%2Fwww.fieldtriptoolbox.org%2Ftutorial%2Fheadmodel_eeg_bem%2F%23automatic-alignment

Best regards

Fra: fieldtrip <fieldtrip-bounces at science.ru.nl> på vegne af Jan Ostrowski via fieldtrip <fieldtrip at science.ru.nl>
Dato: mandag, 21. marts 2022 kl. 10.07
Til: fieldtrip at science.ru.nl <fieldtrip at science.ru.nl>
Cc: Jan Ostrowski <j.ostrowski at uke.de>
Emne: [FieldTrip] Using default head and source models for source reconstruction Hi there,

my name is Jan Ostrowski and I am working on crossmodal memory. I conducted a study using a 64-Channel EEG setup, and would like to explore the data using Fieldtrip's source reconstruction functionality.
However, due to my study design, I did not acquire individual MRI images for solving the forward problem.

I'd like to know if it is possible to use some default templates for that, as all tutorials assume that one has MRI images to work with. If it is possible, then what templates should I use and how would I implement it? As in: What steps of the process described in the tutorials could I skip?

I understand that using default templates will make the results of the source reconstruction less precise, and I am well aware that one should be cautious when interpreting that. This is, however, going to be an additional, exploratory analysis.

Any help with this is greatly appreciated!

Best,
Jan Ostrowski

--
Jan Ostrowski, M.Sc.
Department of Systems Neuroscience
University Medical Center Hamburg-Eppendorf Martinistr. 52 Building W34, Room 320b
D-20246 Hamburg, Germany

--

_____________________________________________________________________

Universitätsklinikum Hamburg-Eppendorf; Körperschaft des öffentlichen Rechts; Gerichtsstand: Hamburg | https://protect2.fireeye.com/v1/url?k=31323334-501d2dca-31327df5-454455534531-dafe2836de562509&q=1&e=718bde04-150b-4731-94bb-fa6a68094807&u=http%3A%2F%2Fwww.uke.de%2F
Vorstandsmitglieder: Prof. Dr. Burkhard Göke (Vorsitzender), Joachim Prölß, Prof. Dr. Blanche Schwappach-Pignataro, Marya Verdel _____________________________________________________________________

SAVE PAPER - THINK BEFORE PRINTING

_______________________________________________
fieldtrip mailing list
https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
https://doi.org/10.1371/journal.pcbi.1002202
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.science.ru.nl/pipermail/fieldtrip/attachments/20220321/a389ec77/attachment-0001.htm>

------------------------------

Subject: Digest Footer

_______________________________________________
fieldtrip mailing list
https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
_______________________________________________
fieldtrip mailing list
https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
https://doi.org/10.1371/journal.pcbi.1002202

------------------------------

End of fieldtrip Digest, Vol 136, Issue 19
******************************************