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Hi,
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<div>Thank you for the answer. Indeed, I have no mistake anymore in the script.</div>
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<div>However, my basic problem is still there : I reject bad trials, but the averaging is on the 100 trials</div>
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<div>Any ideas?</div>
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<div>Emilie</div>
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<div>Le 28 août 2014 à 09:07, Tyler Grummett <<a href="mailto:tyler.grummett@flinders.edu.au">tyler.grummett@flinders.edu.au</a>></div>
<div> a écrit :</div>
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<div>Hey Emilie,</div>
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<div>If you remove the inverted commas from 'epData' on line:</div>
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<div style="margin: 0px;"><font color="#e32400">cleandata = ft_rejectartifact(cfg,'epData');</font></div>
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So that it is:</div>
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<div style="margin: 0px;"><font color="#e32400">cleandata = ft_rejectartifact(cfg,epData);</font></div>
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does that then work?</div>
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<div>Tyler<br>
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Sent from my iPad</div>
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On 28 Aug 2014, at 4:18 pm, "Caspar, Emilie" <<a href="mailto:e.caspar@ucl.ac.uk">e.caspar@ucl.ac.uk</a>> wrote:<br>
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<div>Hello,
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<div>I'm preprocessing my EEG data. The script works correctly, but I think there is something wrong, when I look at the output.</div>
<div>I reject bad trials with :</div>
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<div style="margin: 0px; font-size: 10px; font-family: Courier; ">cfg = [];</div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; ">cfg.alim = 100;</div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; ">cfg.keepchannel = <span style="color: rgb(178, 69, 243); ">'yes'</span>;</div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; ">cfg.layout = <span style="color: rgb(178, 69, 243); ">'biosemi64.lay'</span>;</div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; color: rgb(37, 153, 45); ">
% cfg.method = 'summary';</div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; color: rgb(37, 153, 45); ">
% cfg.method = 'trial';</div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; ">cfg.method = <span style="color: rgb(178, 69, 243); ">'channel'</span>; <span style="color: rgb(37, 153, 45); ">%% Or 'trial' </span></div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; ">cfg.metric = <span style="color: rgb(178, 69, 243); ">'var'</span>;</div>
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<span style="">[data_clean] = ft_rejectvisual(cfg, epData); </span></div>
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<span style="">cfg.artfctdef.reject = </span><span style="color: rgb(178, 69, 243); ">'complete'</span><span style="">; </span></div>
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<span style="">cfg.artfctdef.feedback = </span><span style="color: rgb(178, 69, 243); ">'yes'</span><span style="">; </span></div>
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<div style="margin: 0px; font-size: 10px; font-family: Courier; color: rgb(37, 153, 45); ">
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<div style="margin: 0px; ">And apparently, Fieldtrip correctly identifies what the trials to reject are, Matlab indicates:</div>
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<div style="margin: 0px; "><font face="Baskerville">91 trials marked as GOOD, 9 trials marked as BAD</font></div>
<div style="margin: 0px; "><font face="Baskerville">66 channels marked as GOOD, 0 channels marked as BAD</font></div>
<div style="margin: 0px; "><font face="Baskerville">the following trials were removed: 13, 23, 32, 42, 58, 59, 61, 95, 99</font></div>
<div style="margin: 0px; "><font face="Baskerville">the call to "ft_rejectvisual" took 27 seconds and required the additional allocation of an estimated NaN MB</font></div>
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<div style="margin: 0px; ">So I save this file, before averaging with :</div>
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<div style="margin: 0px; font-size: 10px; font-family: Courier; ">avgFC = ft_timelockanalysis(cfg, epData);</div>
<div style="margin: 0px; font-size: 10px; font-family: Courier; ">ft_singleplotER(cfg,avgFC);</div>
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<div style="margin: 0px; "><br>
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<div style="margin: 0px; ">What is strange, is that during the averaging, I can see that in my matlab window that the averaging is on 100 trials (= the basic number of trials, without rejection), as if Fieldtrip did not take into account the bad trials in the
averaging.</div>
<div style="margin: 0px; "><font face="Baskerville"><br>
</font></div>
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<div style="margin: 0px; "><font face="Baskerville">averaging trials</font></div>
<div style="margin: 0px; "><font face="Baskerville">averaging trial 100 of 100</font></div>
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<div style="margin: 0px; ">By reading, I though that maybe it was because of this function that was missing into my script :</div>
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<div style="margin: 0px; font-size: 10px; font-family: Courier; ">cleandata = ft_rejectartifact(cfg,<span style="color: rgb(178, 69, 243); ">'epData'</span>);</div>
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<div>However, I have the following mistake, and I don't understand it:</div>
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<div><font color="#e32400">Error using ft_rejectartifact (line 234)</font></div>
<div><font color="#e32400">no trials were selected, cannot perform artifact detection/rejection</font></div>
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</font></div>
<div><font color="#e32400">Error in preprocessing_Libet (line 274)</font></div>
<div><font color="#e32400">cleandata = ft_rejectartifact(cfg,'epData');</font></div>
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<div style="margin: 0px; ">Can someone help?</div>
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<div style="margin: 0px; ">Thank you in advance, </div>
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<div style="margin: 0px; ">Emilie</div>
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