[FieldTrip] ft_rejectvisual channel selection
Lozano Soldevilla, D. (Diego)
d.lozanosoldevilla at fcdonders.ru.nl
Tue May 17 00:19:50 CEST 2011
Hi Stan,
You're right. It seems that my problem lies in the lack of trl because I previously resample my data and this last function do not creates a new trl with the updated begin and end samples. If I create a new trl = round(data.cfg.previous.trl(:,1:3) * (1/data.cfg.origfs) *data.fsample);, I get the same error but not with the original data (without resampling). Then I'll use data without resampling to check my artifacts.
Thanks again,
Diego
----- "Stan van Pelt" <stan.vanpelt at fcdonders.ru.nl> wrote:
> From: "Stan van Pelt" <stan.vanpelt at fcdonders.ru.nl>
> To: "Email discussion list for the FieldTrip project" <fieldtrip at donders.ru.nl>
> Sent: Monday, 16 May, 2011 9:40:11 PM
> Subject: Re: [FieldTrip] ft_rejectvisual channel selection
>
> Hi Diego,
>
> Hm, sounds odd to me. Is your trial-definition output from
> ft_definetrial
> correct? So a cfg.trl that is not empty?
>
> Otherwise, you might try starting with an empty cfg again before
> calling
> ft_preprocessing?
>
> cfg=ft_definetrial(cfg);
> trials=cfg.trl;
>
> cfg=[];
> cfg.trl=trials;
> cfg.dataset = [direc d(rr,1).name];
> cfg.channel = {'MEG' 'EEG057' 'EEG058'};
> cfg.continuous = 'yes';
> etc..
> data = ft_preprocessing(cfg);
>
> That should give you an output with a trial-structure, I'd say.
>
> Best,
> Stan
>
> -----Original Message-----
> From: fieldtrip-bounces at donders.ru.nl
> [mailto:fieldtrip-bounces at donders.ru.nl] On Behalf Of Lozano
> Soldevilla,
> D. (Diego)
> Sent: Monday, May 16, 2011 4:25 PM
> To: Email discussion list for the FieldTrip project
> Subject: Re: [FieldTrip] ft_rejectvisual channel selection
>
> Hi Stan,
>
> Thanks for your quickly answer. I get this error:
>
> Warning: the data does not contain a trial definition, assuming that
> the
> trials are consecutive segments of a continuous recording
> > In utilities/private/warning_once at 81
> In utilities/private/fixtrialdef at 52
> In ft_datatype_raw at 91
> In ft_checkdata at 161
> In ft_databrowser at 120
> redrawing with viewmode butterfly
> ??? Improper index matrix reference.
>
> Error in ==> ft_databrowser>redraw_cb at 910
> evtsample = [event(:).sample];
>
> Error in ==> ft_databrowser at 419
> redraw_cb(h);
>
> I don't know why my data have no trial definition when I'm sure that
> is
> epoched... Any ideas?
>
> Thanks in advance,
>
> Diego
>
>
>
> ----- "Stan van Pelt" <stan.vanpelt at fcdonders.ru.nl> wrote:
>
> > From: "Stan van Pelt" <stan.vanpelt at fcdonders.ru.nl>
> > To: "Email discussion list for the FieldTrip project"
> <fieldtrip at donders.ru.nl>
> > Sent: Monday, 16 May, 2011 4:16:16 PM
> > Subject: Re: [FieldTrip] ft_rejectvisual channel selection
> >
> > Hi Diego,
> >
> > You could try using ft_databrowser instead of ft_rejectvisual
> > (followed by
> > ft_rejectartifact), so:
> >
> > cfg = [];
> > cfg.continuous = 'no';
> > cfg.channel = {'EEG057','EEG058'};
> > cfg = ft_databrowser(cfg,data);
> >
> > I think it should work like this.
> >
> > Best,
> > Stan
> >
> > -----Original Message-----
> > From: fieldtrip-bounces at donders.ru.nl
> > [mailto:fieldtrip-bounces at donders.ru.nl] On Behalf Of Lozano
> > Soldevilla,
> > D. (Diego)
> > Sent: Monday, May 16, 2011 4:00 PM
> > To: fieldtrip at donders.ru.nl
> > Subject: [FieldTrip] ft_rejectvisual channel selection
> >
> > Dear Fieldtrippers,
> >
> > I'm using ft_rejectvisual function to reject visually EOG artifacts
> > of
> > epoched trials. My problem consist that I'm not able to plot only
> the
> > EOG
> > channels even when I explicitly select them ignoring the 'MEG'
> > channels (I
> > get a plot with all channels MEG + EOG).
> >
> > I directly used rejectvisual_channel (used in line 263
> > offt_rejectvisual)
> > function selecting the EOG channels but I'm getting again all
> > channels.
> > Somebody could tell me what I'm doing wrong?
> >
> > Thanks in advance,
> >
> > Diego
> >
> >
> >
> > PS: Code
> >
> > %epoching
> > cfg = [];
> > cfg.dataset = [direc d(rr,1).name];
> > cfg.trialdef.eventtype = 'frontpanel trigger';
> > cfg.trialdef.eventvalue = 4;
> > cfg.trialdef.prestim = 1; % in seconds
> > cfg.trialdef.poststim = 4; % in seconds
> > cfg.trialdef.epochmoving = 'inbackward';
> > cfg.trialdef.pivoteventvalue = 2;% cue stimulus
> > cfg.trialdef.jumps = 1;
> > cfg.trialfun = 'trialselec';
> >
> > cfg = ft_definetrial(cfg);
> >
> > cfg.channel = {'MEG' 'EEG057' 'EEG058'};
> > cfg.lpfilter = 'yes';
> > cfg.lpfreq = 250;
> > cfg.baselinewindow = [-1 0];
> > cfg.keeptrials = 'yes';
> > cfg.demean = 'yes';
> > cfg.continuous = 'yes';
> >
> > data = ft_preprocessing(cfg);
> >
> > %..............
> >
> >
> > %visual data rejection
> > cfg = [];
> > cfg.channel = {'EEG057' 'EEG058'};
> > cfg.method = 'channel';
> > cfg.keepchannel = 'yes';
> > data_c = ft_rejectvisual(cfg,data);
> >
> >
> >
> > --
> > PhD Student
> > Donders Institute for Brain, Cognition and Behaviour
> > Centre for Cognitive Neuroimaging
> > Trigon, room 0.83
> > Kapittelweg 29
> > Radboud University Nijmegen
> > NL-6500 HB Nijmegen
> > The Netherlands
> > E-Mail: d.lozanosoldevilla at fcdonders.ru.nl
> > Tel: +31-(0)24-36-66274
> > Web: http://www.neuosc.com/
> > _______________________________________________
> > fieldtrip mailing list
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> > _______________________________________________
> > fieldtrip mailing list
> > fieldtrip at donders.ru.nl
> > http://mailman.science.ru.nl/mailman/listinfo/fieldtrip
>
> --
> PhD Student
> Donders Institute for Brain, Cognition and Behaviour
> Centre for Cognitive Neuroimaging
> Trigon, room 0.83
> Kapittelweg 29
> Radboud University Nijmegen
> NL-6500 HB Nijmegen
> The Netherlands
> E-Mail: d.lozanosoldevilla at fcdonders.ru.nl
> Tel: +31-(0)24-36-66274
> Web: http://www.neuosc.com/
>
>
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