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Hello,</div>
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<br>
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Thank you for your reply. I am stuck with this for couple of days now.</div>
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><span style="margin: 0px; font-size: 9pt; font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, system-ui, Roboto, "Helvetica Neue", sans-serif; color: rgb(32, 31, 30); background-color: rgb(255, 255, 255);"><i>Can you please
specify the cfg to ft_freqstatistics as well? Otherwise, we don’t know what you did exactly.</i></span></div>
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<i style="font-size:12pt;background-color:rgb(255, 255, 255)">
<p class="x_p1" style="margin:0px;font:10px Courier">cfg<span class="x_Apple-converted-space" style="margin:0px"> <span> </span></span>= [];</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.method =<span> </span><span class="x_s1" style="margin:0px;color:rgb(160, 32, 240)">'montecarlo'</span>;</p>
<p class="x_p2" style="margin:0px;font:10px Courier;color:rgb(160, 32, 240)"><span class="x_s2" style="margin:0px;color:rgb(0, 0, 0)">cfg.statistic =<span> </span></span>'indepsamplesZcoh'<span class="x_s2" style="margin:0px;color:rgb(0, 0, 0)">;</span></p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.design(1,1:148)=1;</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.design(1,149:296)=2;</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.numrandomization = 1000;</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.correctm<span> </span><span class="x_Apple-converted-space" style="margin:0px"> <span> </span></span>=<span> </span><span class="x_s1" style="margin:0px;color:rgb(160, 32, 240)">'cluster'</span>;</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.neighbours=[];</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.parameter=<span class="x_s1" style="margin:0px;color:rgb(160, 32, 240)">'crsspctrm'</span>;</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.alpha<span class="x_Apple-converted-space" style="margin:0px"> <span> </span></span>= 0.05;</p>
<p class="x_p1" style="margin:0px;font:10px Courier">cfg.clusteralpha<span> </span><span class="x_Apple-converted-space" style="margin:0px"> <span> </span></span>= 0.05;</p>
<p class="x_p1" style="margin:0px;font:10px Courier">stat=ft_freqstatistics(cfg,freq_coh);</p>
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Sorry I didnt follow this point. I am calling freqstatistics with above cfg parameters</div>
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<br>
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<br>
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<span style="margin: 0px; font-size: 9pt; font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, system-ui, Roboto, "Helvetica Neue", sans-serif; color: rgb(32, 31, 30); background-color: rgb(255, 255, 255);"><i>>Also, ft_freqstatistics
with cfg.statistic = ’indepsamplesZcoh’ requires frequency data that has been computed with >‘fourier’ rather than ‘powandcsd’ as cfg.method for ft_freqanalysis</i></span><br>
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when freq_coh is calculated with fourier method, then above code give following error</div>
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<span style="color: rgb(200, 38, 19); font-size: 9pt;">Error using ft_freqstatistics (line 177)</span>
<div><span style="color: rgb(200, 38, 19); font-size: 9pt;">the length of the design matrix (1) does not match the number of observations in the data (2072)</span></div>
<span style="color: rgb(200, 38, 19); font-size: 9pt;"> </span><br>
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<span style="margin:0px;font-size:12pt">It seems as if the dimord for fourier data is not read correctly, rpttap_chan_freq is getting confused with rpt_chan_freq as 2072 are rpttap , number of repetitions are only 296</span></div>
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</span></div>
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The error can be reproduced by running following script</div>
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<a href="https://www.dropbox.com/s/7bupsr8gkdmy28c/testcode.m?dl=0" id="LPlnk432436">https://www.dropbox.com/s/7bupsr8gkdmy28c/testcode.m?dl=0</a><br>
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with this data</div>
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<a href="https://www.dropbox.com/s/6gfj97srttteawy/Coh_data.mat?dl=0" target="_blank" rel="noopener noreferrer" data-auth="NotApplicable" data-linkindex="0" style="margin:0px;background-color:rgb(255, 255, 255)">https://www.dropbox.com/s/6gfj97srttteawy/Coh_data.mat?dl=0</a><br>
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Thank you </div>
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Kind regards</div>
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Bushra Riaz</div>
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<hr style="display:inline-block;width:98%" tabindex="-1">
<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> fieldtrip <fieldtrip-bounces@science.ru.nl> on behalf of Schoffelen, J.M. (Jan Mathijs) <jan.schoffelen@donders.ru.nl><br>
<b>Sent:</b> 18 May 2021 14:05<br>
<b>To:</b> FieldTrip discussion list <fieldtrip@science.ru.nl><br>
<b>Subject:</b> Re: [FieldTrip] Error using indepsamplesZcoh function for calculating coherence differences</font>
<div> </div>
</div>
<div class="" style="word-wrap:break-word; line-break:after-white-space">Hi Bushra,
<div class=""><br class="">
</div>
<div class="">Can you please specify the cfg to ft_freqstatistics as well? Otherwise, we don’t know what you did exactly.</div>
<div class=""><br class="">
</div>
<div class="">Also, ft_freqstatistics with cfg.statistic = ’indepsamplesZcoh’ requires frequency data that has been computed with ‘fourier’ rather than ‘powandcsd’ as cfg.method for ft_freqanalysis</div>
<div class=""><br class="">
</div>
<div class="">Best wishes,</div>
<div class="">Jan_Mathijs</div>
<div class=""><br class="">
<div><br class="">
<blockquote type="cite" class="">
<div class="">On 14 May 2021, at 13:36, Bushra Riaz Syeda <<a href="mailto:bushra.riaz@gu.se" class="">bushra.riaz@gu.se</a>> wrote:</div>
<br class="x_Apple-interchange-newline">
<div class="">
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-family:calibri,arial,helvetica,sans-serif; font-size:12pt; background-color:rgba(0,0,0,0)">Hello,</span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-family:calibri,arial,helvetica,sans-serif; font-size:12pt; background-color:rgba(0,0,0,0)">I am trying to do the analysis based on the paper </span><span class="" style="font-family:calibri,arial,helvetica,sans-serif; font-size:12pt; background-color:rgba(0,0,0,0)"><span class="" style="font-variant-ligatures:inherit; font-variant-caps:inherit">"nonparametric
statistical testing of coherence differences" in fieldtrip for comparing differences between two conditions on single subject level.</span></span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit"><br class="">
</span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-family:calibri,arial,helvetica,sans-serif; font-size:12pt; background-color:rgba(0,0,0,0)"><span class="" style="font-variant-ligatures:inherit; font-variant-caps:inherit">I am using the following code</span></span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-family:calibri,arial,helvetica,sans-serif; font-size:12pt; background-color:rgba(0,0,0,0)"><span class="" style="font-variant-ligatures:inherit; font-variant-caps:inherit"><br class="">
</span></span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<i class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit; font-weight:inherit">
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg<span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>= [];</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.method =<span class="x_Apple-converted-space"> </span><span class="x_s1" style="color:rgb(160,32,240)">'montecarlo'</span>;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier; color:rgb(160,32,240)">
<span class="x_s2" style="">cfg.statistic =<span class="x_Apple-converted-space"> </span></span>'indepsamplesZcoh'<span class="x_s2" style="">;</span></div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.design(1,1:148)=1;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.design(1,149:296)=2;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.numrandomization = 1000;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.correctm<span class="x_Apple-converted-space"> </span><span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>=<span class="x_Apple-converted-space"> </span><span class="x_s1" style="color:rgb(160,32,240)">'cluster'</span>;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.neighbours=[];</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.parameter=<span class="x_s1" style="color:rgb(160,32,240)">'crsspctrm'</span>;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.alpha<span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>= 0.05;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.clusteralpha<span class="x_Apple-converted-space"> </span><span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>= 0.05;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
stat=ft_freqstatistics(cfg,freq_coh);</div>
<br class="">
</i></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<i class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit; font-weight:inherit"><br class="">
</i></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-family:calibri,arial,helvetica,sans-serif; font-size:12pt; background-color:rgba(0,0,0,0)"><span class="" style="font-variant-ligatures:inherit; font-variant-caps:inherit">Where freq_coh is calculated as</span></span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit">
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg<span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>= [];</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.output<span class="x_Apple-converted-space"> </span><span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>=<span class="x_Apple-converted-space"> </span><span class="x_s1" style="color:rgb(160,32,240)">'powandcsd'</span>;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.method<span class="x_Apple-converted-space"> </span><span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>=<span class="x_Apple-converted-space"> </span><span class="x_s1" style="color:rgb(160,32,240)">'mtmfft'</span>;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.foilim<span class="x_Apple-converted-space"> </span><span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>= [1 40];</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.tapsmofrq<span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>= 2;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.pad =<span class="x_Apple-converted-space"> </span><span class="x_s1" style="color:rgb(160,32,240)">'nextpow2'</span>;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
cfg.keeptrials =<span class="x_Apple-converted-space"> </span><span class="x_s1" style="color:rgb(160,32,240)">'yes'</span>;</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
freq_coh<span class="x_Apple-converted-space"> <span class="x_Apple-converted-space"> </span></span>= ft_freqanalysis(cfg, Coh_data);</div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
<br class="">
</div>
<div class="" style="margin:0px; font-variant-ligatures:normal; font-variant-caps:normal; font-variant-east-asian:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
<span class="" style="font-family:calibri,arial,helvetica,sans-serif; font-size:12pt; background-color:rgba(0,0,0,0)">I am getting the following error</span></div>
<div class="" style="margin:0px; font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier">
<br class="">
</div>
<div class="x_p1" style="font-style:normal; font-variant-caps:normal; font-weight:normal; font-stretch:normal; font-size:10px; line-height:normal; font-family:Courier; margin:0px">
Error using ft_statistics_montecarlo (line 250)
<div class="">could not determine the parametric critical value for clustering</div>
<div class=""><br class="">
</div>
<div class="">Error in ft_freqstatistics (line 194)</div>
[stat, cfg] = statmethod(cfg, dat, design);<br class="">
</div>
<br class="">
</span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit">Sample data can be found at the following link</span></div>
<div class="" style="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; text-decoration:none; font-family:Calibri,Arial,Helvetica,sans-serif; font-size:12pt">
<span class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit"><a href="https://urldefense.com/v3/__https://www.dropbox.com/s/6gfj97srttteawy/Coh_data.mat?dl=0__;!!HJOPV4FYYWzcc1jazlU!rzdciE12ryfrSpIQp-4LAZj3EK_9U0i1XJby6k79PqsvZKuG4jrCMN-qjHXKDzonA-cj5upg$" id="LPlnk" class="">https://www.dropbox.com/s/6gfj97srttteawy/Coh_data.mat?dl=0</a><br class="">
</span></div>
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<span class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit; font-weight:inherit">any help would be highly appreciated</span></div>
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<span class="" style="font-size:12pt; font-variant-ligatures:inherit; font-variant-caps:inherit; font-weight:inherit">Kind regards</span></div>
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Bushra Riaz</div>
<span class="" 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; text-decoration:none; float:none; display:inline!important">_______________________________________________</span><br class="" 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; text-decoration:none">
<span class="" 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; text-decoration:none; float:none; display:inline!important">fieldtrip
mailing list</span><br class="" 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; text-decoration:none">
<a href="https://mailman.science.ru.nl/mailman/listinfo/fieldtrip" class="" style="font-family:Helvetica; font-size:14px; font-style:normal; font-variant-caps:normal; font-weight:normal; letter-spacing:normal; orphans:auto; text-align:start; text-indent:0px; text-transform:none; white-space:normal; widows:auto; word-spacing:0px">https://mailman.science.ru.nl/mailman/listinfo/fieldtrip</a><br class="" 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; text-decoration:none">
<a href="https://urldefense.com/v3/__https://doi.org/10.1371/journal.pcbi.1002202__;!!HJOPV4FYYWzcc1jazlU!rzdciE12ryfrSpIQp-4LAZj3EK_9U0i1XJby6k79PqsvZKuG4jrCMN-qjHXKDzonA0G39K1J$" class="" style="font-family:Helvetica; font-size:14px; font-style:normal; font-variant-caps:normal; font-weight:normal; letter-spacing:normal; orphans:auto; text-align:start; text-indent:0px; text-transform:none; white-space:normal; widows:auto; word-spacing:0px">https://urldefense.com/v3/__https://doi.org/10.1371/journal.pcbi.1002202__;!!HJOPV4FYYWzcc1jazlU!rzdciE12ryfrSpIQp-4LAZj3EK_9U0i1XJby6k79PqsvZKuG4jrCMN-qjHXKDzonA0G39K1J$</a><span class="" 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; text-decoration:none; float:none; display:inline!important"></span></div>
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