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Hi Xavier,
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<div class="">I see. Unfortunately you happened to end up in a corner of the code that is a bit shaky, and possibly not well tested (although once upon a time it may have worked). This may be due to the fact that you are trying to ‘fool’ fieldtrip into treating
a multiple subject design as if it’s a single subject design with multiple trials (where each of the trials represents a single condition estimate for a subject), correct? (as a side note: you would want to use ‘depsamplesT’ rather than ‘indepsamplesT’ as
your test statistic).</div>
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<div class="">I think that you should not do this. First, as you have noticed this leads to downstream problems (specifically handcrafting combined data could easily lead to a user-error causing the data to deviate according to what FieldTrip can handle, but
also using the cfg.rawtrial option of ft_sourceanalaysis historically and notoriously is a dysfunctional (or at least unpredictable in its behavior) option. (nominated to be removed once we find the time). Next to this, even though it seems your geometrical
data (i.e. electrode positions, headmodel, sourcemodel) are shared across subjects, the covariance structure of the data will for sure be subject-specific, and I don’t think that it is a good idea to combine data across subjects before sourceanalysis.</div>
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<div class="">This is what I would do:</div>
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<div class="">for each subject do:</div>
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<div class="">ft_timelockanalysis with the subject-specific data combined across conditions</div>
<div class="">ft_timelockanalysis with the subject-specific data for each of the conditions separately</div>
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<div class="">ft_sourceanalysis with the subject-specific data combined across conditions AND cfg.lcmv.keepfilter = ‘yes’; (and don’t specify cfg.keeptrials or cfg.rawtrial)</div>
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<div class="">input the source.avg.filter from the previous step into the cfg</div>
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<div class="">for each condition (in each subject) do:</div>
<div class=""> ft_sourceanalysis</div>
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<div class="">after this you should have a set of Nsubject times number of conditions source structures</div>
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<div class="">then you should be able to use ft_sourcestatistics with cfg.statisti = ‘depsamplesT’:</div>
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<div class="">ft_sourcestatistics(cfg, source{:}); % if in the previous for-loop you have stored the individual source-objects into a cell-array this syntax works (and is much cleaner than either ft_sourcestatistics(cfg, source1a, source2a ,…etc), and cleaner
than going through ft_sourcegrandaverage).</div>
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<div class="">ft_sourcedescriptives should not be needed in this recipe.</div>
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<div class="">Good luck,</div>
<div class="">Jan-Mathijs</div>
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<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
J.M.Schoffelen, MD PhD<br class="">
Senior Researcher, VIDI-fellow - PI, language in interaction<br class="">
Telephone: +31-24-3614793</div>
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Physical location: room 00.028</div>
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Donders Centre for Cognitive Neuroimaging, Nijmegen, The Netherlands<br class="">
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<div class="">On 20 Feb 2019, at 21:32, Xavier Vrijdag <<a href="mailto:x.vrijdag@auckland.ac.nz" class="">x.vrijdag@auckland.ac.nz</a>> wrote:</div>
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Hi Jan-Mathijs,<o:p class=""></o:p></div>
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Thank you for your help. I went in to have a look at what is going on inside those loops and found that the error is occurring in iteration 6, when the field source.trial(1).label is concatenated. It uses the indexes for the big data cells (ori, mom & filter)
which clearly doesn’t work on the small cell with the labels. This seems to me that this is a bug.<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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I added a piece of code in front of the loop that was giving the error (before line 177 and make the if and elseif.<o:p class=""></o:p></div>
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<span style="font-size: 7.5pt; font-family: Courier;" class=""> <span class="Apple-converted-space"> </span><span style="color: blue;" class="">if</span><span class="Apple-converted-space"> </span>isequal(fn{i},<span class="Apple-converted-space"> </span><span style="color: rgb(160, 32, 240);" class="">'label'</span>)<o:p class=""></o:p></span></div>
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<span style="font-size: 7.5pt; font-family: Courier;" class=""> <span class="Apple-converted-space"> </span><span style="color: blue;" class="">for</span><span class="Apple-converted-space"> </span>j=1:nrpt<o:p class=""></o:p></span></div>
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<span style="font-size: 7.5pt; font-family: Courier;" class=""> source_new.label(:,j) = source.trial(j).label;<o:p class=""></o:p></span></div>
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<span style="font-size: 7.5pt; font-family: Courier;" class=""> <span class="Apple-converted-space"> </span><span style="color: blue;" class="">end</span><o:p class=""></o:p></span></div>
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<span style="font-size: 7.5pt; font-family: Courier;" class=""> <span class="Apple-converted-space"> </span><span style="color: blue;" class="">elseif</span><span class="Apple-converted-space"> </span>iscell(dat)<o:p class=""></o:p></span></div>
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This worked to circumvent the problem. However, I do get the warning that the dimord of “ori” and “df” could not be determined. When using this cleaned source struct in source statistics I get further errors.<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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It looks like an issue with how the source struct is built by the source analysis function with trials, and lateron needs to be restructured. SO I would like to know what is the needed structure for ft_sourcestatistics, so we can adjust the code correctly.<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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Regards,<o:p class=""></o:p></div>
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Xavier<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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<o:p class=""> </o:p></div>
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<b class=""><span style="font-size: 12pt;" class="">From:<span class="Apple-converted-space"> </span></span></b><span style="font-size: 12pt;" class="">fieldtrip <<a href="mailto:fieldtrip-bounces@science.ru.nl" class="">fieldtrip-bounces@science.ru.nl</a>>
on behalf of "Schoffelen, J.M. (Jan Mathijs)" <<a href="mailto:jan.schoffelen@donders.ru.nl" class="">jan.schoffelen@donders.ru.nl</a>><br class="">
<b class="">Reply-To:<span class="Apple-converted-space"> </span></b>FieldTrip discussion list <<a href="mailto:fieldtrip@science.ru.nl" class="">fieldtrip@science.ru.nl</a>><br class="">
<b class="">Date:<span class="Apple-converted-space"> </span></b>Wednesday, 20 February 2019 at 2:59 AM<br class="">
<b class="">To:<span class="Apple-converted-space"> </span></b>FieldTrip discussion list <<a href="mailto:fieldtrip@science.ru.nl" class="">fieldtrip@science.ru.nl</a>><br class="">
<b class="">Subject:<span class="Apple-converted-space"> </span></b>Re: [FieldTrip] Error in source localisation statistics<o:p class=""></o:p></span></div>
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<o:p class=""> </o:p></div>
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Hi Xavier,<span class="Apple-converted-space"> </span><o:p class=""></o:p></div>
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My recommendation here would be to use the matlab debugger and inspect the cause of the error. The ‘Index exceeds array bounds’ is quite a clear error message, and suggests that there is a mismatch between the number of elements in dat/val, and the numbers
represented in indx(k).<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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Good luck,<o:p class=""></o:p></div>
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Jan-Mathijs<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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On 18 Feb 2019, at 07:23, Xavier Vrijdag <<a href="mailto:x.vrijdag@auckland.ac.nz" style="color: purple; text-decoration: underline;" class="">x.vrijdag@auckland.ac.nz</a>> wrote:<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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<span lang="EN-US" class="">Hello,</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
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<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
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<span lang="EN-US" class="">I have a dataset from an experiment where 12 participants were exposed to 3 levels of nitrous oxide, while I measured their EEG. I also have a baseline recording. I took for each exposure (and baseline) a 1 minute sample for further
analysis. I want to do source localization to better understand which parts of the brain are involved. I don’t have MRI scans of my participants, so I used the standard MRI and BEM. I would like to thanks the persons who made the various manuals and analysis
examples on the website, as they helped me tremendously to do this analysis.</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
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<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
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<span lang="EN-US" class="">After cleaning and preprocessing, I combined the datasets into one for further analysis. I also chose to make 5 sec “trials” for further analysis. For this source analysis I loaded the data of 1 exposure and the baseline data, to
compare them.</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
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<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
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<span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> %Calculate the channel covariance matric<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg = [];<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.covariance =<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'yes'</span></span>;<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.covariancewindow =<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'all'</span></span>;<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.keeptrials<span class="apple-converted-space"> </span>=<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'yes'</span></span>;<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">timelock = ft_timelockanalysis(cfg, data_filt);<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class=""><o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">%Global filter<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg = [];<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.headmodel = vol;<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.elec = elec_aligned;<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.grid = grid;<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.method =<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'lcmv'</span></span>;<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">cfg.lcmv.projectnoise=</span></span><span class="s1"><span style="font-size: 7.5pt; font-family: Courier; color: rgb(160, 32, 240);" class="">'yes'</span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">;</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">%needed
for neural activity index<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">cfg.lcmv.fixedori
=</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s1"><span style="font-size: 7.5pt; font-family: Courier; color: rgb(160, 32, 240);" class="">'yes'</span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">;</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">%Project
onto largest variance orientation<o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.lcmv.keepfilter =<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'yes'</span></span>;<span class="apple-converted-space"> </span><span class="s3"><span style="color: forestgreen;" class="">%Keep
the beamformer weights</span></span><o:p class=""></o:p></span></div>
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<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.lcmv.lambda =<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'5%'</span></span>;<span class="apple-converted-space"> </span><span class="s3"><span style="color: forestgreen;" class="">%Regularise
a little</span></span><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">cfg.rawtrial</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">
</span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">=</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s1"><span style="font-size: 7.5pt; font-family: Courier; color: rgb(160, 32, 240);" class="">'yes'</span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">;</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">
</span></span><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">% project each single trial through the filter.<span class="apple-converted-space"> </span><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.keeptrials<span class="apple-converted-space"> </span>=<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'yes'</span></span>;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">source = ft_sourceanalysis(cfg, timelock);<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg = [];<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.dim<span class="apple-converted-space"> </span>= source.dim;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.method<span class="apple-converted-space"> </span>=<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'montecarlo'</span></span>;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.statistic<span class="apple-converted-space"> </span>=<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'ft_statfun_indepsamplesT'</span></span>;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.parameter<span class="apple-converted-space"> </span>=<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'pow'</span></span>;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.correctm<span class="apple-converted-space"> </span>=<span class="apple-converted-space"> </span><span class="s1"><span style="color: rgb(160, 32, 240);" class="">'cluster'</span></span>;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.numrandomization = 1000;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">cfg.alpha</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">
</span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">= 0.05;</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">%
note that this only implies single-sided testing<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.tail<span class="apple-converted-space"> </span>= 0;<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.design(1,:) = [1:nTrials 1:nTrials];<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">cfg.design(2,:) = [ones(1,nTrials) ones(1,nTrials).*2];<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">cfg.uvar</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">
</span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">= 1;</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">%
row of design matrix that contains unit variable (in this case: trials)<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">cfg.ivar</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">
</span></span><span class="s2"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">= 2;</span></span><span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier; color: forestgreen;" class="">%
row of design matrix that contains independent variable (the conditions)<span class="apple-converted-space"> </span><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span class="apple-converted-space"><span style="font-size: 7.5pt; font-family: Courier;" class=""> </span></span><span style="font-size: 7.5pt; font-family: Courier;" class="">stat = ft_sourcestatistics(cfg, source);<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">After the source analysis the source statistics script calls the checkdata script and I get the following error:</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Index exceeds array bounds.</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Error in ft_datatype_source (line 183)</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> val{indx(k)}(1,:,:,:) = dat{indx(k)};</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Error in ft_checkdata (line 278)</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> data = ft_datatype_source(data);</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Error in ft_sourcestatistics (line 94)</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> varargin{i} = ft_checkdata(varargin{i}, 'datatype', 'source', 'feedback', 'no');</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Error in sourcelocalisation_N2O (line 114)</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> stat = ft_sourcestatistics(cfg, source);</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">The source struct has the following content:</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> time: [1×15360 double]</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> dim: [24 31 25]</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> inside: [18600×1 logical]</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> pos: [18600×3 double]</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> method: 'rawtrial'</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> trial: [1×24 struct]</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> df: 24</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> cfg: [1×1 struct]</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">With source.trial:</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> 1×24 struct array with fields:</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> ori</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> pow</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> mom</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> noise</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> filter</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> label</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> filterdimord</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">I would like your help to understand the error and how to fix it.</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Regards,</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Xavier Vrijdag</span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""> </span><span style="font-size: 12pt;" class=""><o:p class=""></o:p></span></div>
</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 10.5pt; font-family: Helvetica;" class="">_______________________________________________<br class="">
fieldtrip mailing list<br class="">
</span><a href="https://mailman.science.ru.nl/mailman/listinfo/fieldtrip" style="color: purple; text-decoration: underline;" class=""><span style="font-size: 10.5pt; font-family: Helvetica; color: rgb(149, 79, 114);" class="">https://mailman.science.ru.nl/mailman/listinfo/fieldtrip</span></a><span style="font-size: 10.5pt; font-family: Helvetica;" class=""><br class="">
</span><a href="https://doi.org/10.1371/journal.pcbi.1002202" style="color: purple; text-decoration: underline;" class=""><span style="font-size: 10.5pt; font-family: Helvetica; color: rgb(149, 79, 114);" class="">https://doi.org/10.1371/journal.pcbi.1002202</span></a><o:p class=""></o:p></div>
</div>
</blockquote>
</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
</div>
<span style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class="">_______________________________________________</span><br style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">
<span style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class="">fieldtrip
mailing list</span><br style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">
<span style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class=""><a href="https://mailman.science.ru.nl/mailman/listinfo/fieldtrip" class="">https://mailman.science.ru.nl/mailman/listinfo/fieldtrip</a></span><br style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">
<span style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class=""><a href="https://doi.org/10.1371/journal.pcbi.1002202" class="">https://doi.org/10.1371/journal.pcbi.1002202</a></span></div>
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