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<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">Hi Jonathon, you could try something like this:<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="p1">trigger_nums = 161:225; <span class="s1">%TTL channels</span><o:p></o:p></p>
<p class="p1">triggers <span class="apple-converted-space"> </span>= ft_read_data(cfg.dataset,<span class="s2">'dataformat'</span>,<span class="s2">'yokogawa_con'</span>,<span class="s2">'chanindx'</span>,trigger_nums);
<span class="s1">%read in data from MEG</span><o:p></o:p></p>
<p class="p2"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p1">hdr = ft_read_header(cfg.dataset,<span class="s2">'dataformat'</span>,<span class="s2">'yokogawa_con'</span>);<o:p></o:p></p>
<p class="p3"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p1"><span class="s3">for</span> j=1:size(triggers,1)<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>trig_height(j) = max(triggers(j,:));
<span class="s1">%find the peak voltage in trigger channel</span><o:p></o:p></p>
<p class="p4">end<o:p></o:p></p>
<p class="p5"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p1">trig_thresh = 0.25*max(trig_height); <span class="s1">% threshold 1/4 of trigger max</span><o:p></o:p></p>
<p class="p1">triggers<span class="apple-converted-space"> </span>= triggers>trig_thresh;
<span class="s1">%Binarise trigger channels</span><o:p></o:p></p>
<p class="p2"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p1">event = [];<o:p></o:p></p>
<p class="p1">list<span class="apple-converted-space"> </span>= trigger_nums;<o:p></o:p></p>
<p class="p3"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p1"><span class="s3">for</span> k=1:size(triggers,1)<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>channel <span class="apple-converted-space">
</span>= list(k);<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>trig<span class="apple-converted-space">
</span>= triggers(k,:);<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>pad <span class="apple-converted-space">
</span>= trig(1);<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>trigshift = 0;<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>begsample = 1;<o:p></o:p></p>
<p class="p3"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p3"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span><span class="s3">for</span> l=find(diff([pad trig(:)'])>0)<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>event(end+1).type
<span class="apple-converted-space"> </span>= num2str(channel);<o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>event(end<span class="apple-converted-space">
</span>).sample = l + begsample - 1;<span class="apple-converted-space"> </span>
<span class="s1">% assign the sample at which the trigger has gone down</span><o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span>event(end<span class="apple-converted-space">
</span>).value<span class="apple-converted-space"> </span>= trig(l+trigshift);<span class="apple-converted-space">
</span><span class="s1">% assign the trigger value just _after_ going up</span><o:p></o:p></p>
<p class="p1"><span class="apple-converted-space"> </span><span class="s3">end</span><o:p></o:p></p>
<p class="p3"><span class="apple-converted-space"> </span><o:p></o:p></p>
<p class="p4">end<o:p></o:p></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><span lang="EN-GB">-- <o:p></o:p></span></p>
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<p class="MsoNormal"><b><span lang="EN-GB">W: <a href="https://scholar.google.com.au/citations?hl=en&user=3qso4G4AAAAJ&view_op=list_works&sortby=pubdate">
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<p class="MsoNormal"><b><span style="font-size:12.0pt;color:black">From: </span></b><span style="font-size:12.0pt;color:black">fieldtrip <fieldtrip-bounces@science.ru.nl> on behalf of "fieldtrip-request@science.ru.nl" <fieldtrip-request@science.ru.nl><br>
<b>Reply to: </b>"fieldtrip@science.ru.nl" <fieldtrip@science.ru.nl><br>
<b>Date: </b>Saturday, 26 October 2019 at 4:58 am<br>
<b>To: </b>"fieldtrip@science.ru.nl" <fieldtrip@science.ru.nl><br>
<b>Subject: </b>fieldtrip Digest, Vol 107, Issue 14<o:p></o:p></span></p>
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Today's Topics:<br>
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1. Difficulty detecting TTL pulses with ft_read_event<br>
(Jonathon James Parker)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Fri, 25 Oct 2019 17:56:22 +0000<br>
From: Jonathon James Parker <parkerjo@stanford.edu><br>
To: " fieldtrip@science.ru.nl" <fieldtrip@science.ru.nl><br>
Subject: [FieldTrip] Difficulty detecting TTL pulses with<br>
ft_read_event<br>
Message-ID:<br>
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Content-Type: text/plain; charset="windows-1252"<br>
<br>
Hi FieldTrippers:<br>
<br>
I am a LFP/Brain stimulation researcher new to FieldTrip @Stanford.<br>
<br>
I have run across some difficulty using the ft_read_event to detect TTL pulses and triggering my data into discrete epochs<br>
<br>
I have 14 channels of LFP data and 1 channel of trigger data recording using a gTec USBAmp-Research. I have successfully read in the data, filtered-it, re-referenced channels of interest, and appended the un-filitered trigger channel (‘TRAIN’).<br>
<br>
The TTL pulses are on (value ~1) while stimulation is on. I would like to trigger based on the upgoing flank.<br>
<br>
Each time I run ft_read_event, I have passed it the isolated trigger channel data, but I receive this error:<br>
[cid:image002.png@01D58B22.76EEAD40]<br>
<br>
Does anyone have sample scripts they could share with use of ft_read_event to detect TTL pulses?<br>
<br>
See my full code below:<br>
<br>
[cid:image004.png@01D58B22.D7510DE0]<br>
<br>
Thank you!<br>
<br>
Jonathon<br>
<br>
Jonathon J. Parker MD PhD<br>
Stanford University<br>
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