[FieldTrip] Compute Time-Frequency Granger Causality with ft_connectivityanalysis

[laetitia.lalla at inserm.fr]

Hi Daniel, 

Thanks a lot for your answer. I was using a version from last September.
I downloaded the most recent version "fieldtrip-20160809" this morning
and I still have the same issue... When I call ft_connectivity analysis,
this message is displayed : "the call to "ft_selectdata" took 0 seconds
and required the additional allocation of an estimated ... MB" and then
Matlab stays stuck... I terminate it myself and the error is still the
same : 

Operation terminated by user during ft_checkdata>fixcsd (line 1072)
In ft_checkdata (line 595)
    data = fixcsd(data, cmbrepresentation, channelcmb); 

In ft_checkdata>fixcsd (line 1170)
  data       = ft_checkdata(data, 'cmbrepresentation', 'full');
In ft_checkdata (line 595)
    data = fixcsd(data, cmbrepresentation, channelcmb);
In ft_connectivityanalysis (line 416)
          data = ft_checkdata(data, 'cmbrepresentation', 'full'); 

Has anyone else encountered issues when trying to plot a Time-Frequency
Map of the Granger causality with ft_connectivityanalysis ? 

Thanks a lot for your help. 

Best, 

Laetitia 

On 08-08-2016 11:51, Hähnke wrote: 

> Dear Laetitia, 
> 
> I think I had this issue before and it was caused by a bug in the fieldtrip version I was using. What version are you using? 
> 
> Best, 
> 
> Daniel
> 
> --
> Daniel Hähnke
> PhD student
> 
> Technische Universität München
> Institute of Neuroscience
> Translational NeuroCognition Laboratory
> Biedersteiner Straße 29, Bau 601
> 80802 Munich
> Germany
> 
> Email: daniel.haehnke at tum.de
> Phone: +49 89 4140 3356 
> 
>> On 08.08.2016, at 11:36, laetitia.lalla at inserm.fr wrote: 
>> 
>> Hello fieldtrippers, 
>> first of all, thanks a lot for this collaborative mailing list. It helped me a lot in the past and i hope you will be able to help me today ! 
>> 
>> I succesfully implemented the spectral granger causality thanks to this FieldTrip tutorial : http://www.fieldtriptoolbox.org/tutorial/connectivityextended [1]. Now I'd like to compute a Time-Frequency Map of my granger causality. Hence, I used ft_freqanalysis with cfg.method  = 'mtmconvol' and cfg.output  = 'powandcsd' and the minimal code 
>>> cfg=[];
>>> cfg.method='granger';
>>> granger=ft_connectivityanalysis(cfg, freq); 
>> to compute the granger causality. 
>> However, when I run this code, Matlab bugs and stays "busy" for a while until I terminate it, with the following error message : 
>> 
>> Operation terminated by user during ft_checkdata>fixcsd (line 1255)
>> 
>> In ft_checkdata (line 797)
>> data = fixcsd(data, cmbrepresentation, channelcmb);
>> 
>> In ft_checkdata>fixcsd (line 1351)
>> data = ft_checkdata(data, 'cmbrepresentation', 'full');
>> 
>> In ft_checkdata (line 797)
>> data = fixcsd(data, cmbrepresentation, channelcmb);
>> 
>> In ft_connectivityanalysis (line 392)
>> data = ft_checkdata(data, 'cmbrepresentation', 'full');
>> 
>> I can see in the help of the function checkdata the following :  "cmbrepresentation  = sparse, full (applies to covariance and cross-spectral density)". But I don't really understand what "cmbrepresentation" do ... Maybe someone who had a similar problem in the past can help me ? I think I'm missing some optional arguments that I should add. 
>> 
>> Thanks a lot for your help. 
>> 
>> Regards, 
>> 
>> Laetitia Lalla 
>> PhD student in INMED, Marseille, France _______________________________________________
>> fieldtrip mailing list
>> fieldtrip at donders.ru.nl
>> https://mailman.science.ru.nl/mailman/listinfo/fieldtrip
> 
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Links:
------
[1] http://www.fieldtriptoolbox.org/tutorial/connectivityextended
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