[FieldTrip] TRENTOOL bad channel combinations

[Tyler Grummett]

?Hello Patricia,


I have previously selected the channels that are EEG, I am not entering in 'EEG' or anything.


            cfgTEP = [];
            cfgTEP.Path2TSTOOL = fullfile( matlabrootpath, 'Matlab', 'OpenTSTOOL'); % dont add this to matlab path
            cfgTEP.toi = [ min( [vchan.time{ :}]), max( [vchan.time{ :}])];
            cfgTEP.channel = vchan.label( comps);?


After playing around with it for a bit I dont think it is the channel combinations, but the data.


If I can ask a separate question, what is an optimal length for the trials? My trials are about 500 ms long and it gives me the following error:


Error using TEprepare (line 710)
TRENTOOL ERROR: Not enough points in timeseries for current analysis settings: cfg.repPred too big, or
max(cfg.ragdim)*max(cfg.ragtaurange) too big, or maximum u to big

It is recommended that the cfgTEP.repPred is size(data.trial{1,1},2)*(3/4)

However it only works for me if it is size(data.trial{1,1},2)*(3/9)?.

Then it runs fine, but Im worried about changing this.

Tyler



*************************

Tyler Grummett ( BBSc, BSc(Hons I))
PhD Candidate
Brain Signals Laboratory
Flinders University
Rm 5A301
Ext 66124
________________________________
From: fieldtrip-bounces at science.ru.nl <fieldtrip-bounces at science.ru.nl> on behalf of Patricia Wollstadt <Patricia.Wollstadt at gmx.de>
Sent: Friday, 11 April 2014 6:42 PM
To: FieldTrip discussion list
Subject: Re: [FieldTrip] TRENTOOL bad channel combinations

Hello Tyler,

TRENTOOL does not support the exclusion of channels like FieldTrip does (e.g.  {'all', '-MLx', '-EOG'}), you have to explicitly specify channels OR combinations of channels for analysis in the cfg structure passed to TEprepare:

%  cfg.sgncmb      = list of channelpairs cell array (Nx(source, target))
%  or
%  cfg.channel     = list of channels cell array - testing will be done all-by-all

If you provide a list of channel combinations in cfg.sgncmb, TRENTOOL will analyze these combinations only; if you provide a list of channels in cfg.channel, TEprepare will build all possible channel combinations from the list and TRENTOOL will analyze these combinations. (Also, channel names have to match the channel labels in data.label.)

So, a way to exclude bad channel combinations would be to provide a list of all channels that should be included in the analysis in cfg.channel and let TEprepare build the channel combinations from that.

I hope this answers your question. Please let me know if you encounter any more problems.

Best,
Patricia



On 04/11/2014 04:38 AM, Tyler Grummett wrote:

?Hello fieldtrip,


Has anyone worked out how to handle bad channel combinations in TRENTOOL using TEprepare?


In my experience it just crashes. I am hoping for a way to calculate the bad channel combinations before running TEprepare.


If anyone can help, that will be greatly appreciated!!


Tyler


*************************

Tyler Grummett ( BBSc, BSc(Hons I))
PhD Candidate
Brain Signals Laboratory
Flinders University
Rm 5A301
Ext 66124



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

Patricia Wollstadt, PhD Student

MEG Unit, Brain Imaging Center
Goethe University, Frankfurt, Germany

Heinrich Hoffmann Strasse 10, Haus 93 B
D - 60528 Frankfurt am Main
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