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<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US">Hi Jan,
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US">Thank you for your reply. I actually thought of doing this yesterday after I sent the email, and it worked!
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US">I do think there is something off with the plots I’ve managed to plot from the output of ft_virtualchannel by creating a dummy struct, as in the source space doesn’t align completely
onto the 3D grid, so I might get back in touch if I can’t figure out where the plotting goes wrong.
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US">Thanks again!<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US">All the best,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US">Marta<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
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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 "Schoffelen, J.M. (Jan Mathijs) via fieldtrip" <fieldtrip@science.ru.nl><br>
<b>Reply to: </b>FieldTrip discussion list <fieldtrip@science.ru.nl><br>
<b>Date: </b>Friday, 20. January 2023 at 11:17<br>
<b>To: </b>FieldTrip discussion list <fieldtrip@science.ru.nl><br>
<b>Cc: </b>"Schoffelen, J.M. (Jan Mathijs)" <janmathijs.schoffelen@donders.ru.nl><br>
<b>Subject: </b>Re: [FieldTrip] Issue in ft_virtualchannel<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Dear Marta, <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">If you are sure that the dipole positions in dummy_source_trans and source_plot are topologically equivalent, you could try and replace source_plot.pos with dummy_source_trans.pos.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Given the absence of additional information about the error in ft_dipolefitting, there’s no way I can comment on that<o:p></o:p></p>
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<p class="MsoNormal"><br>
<br>
<o:p></o:p></p>
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<p class="MsoNormal">On 19 Jan 2023, at 22:31, Marta Stojanović via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl">fieldtrip@science.ru.nl</a>> wrote:<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Hi, <br>
<br>
I hope this question finds you well. I'm trying to use the ft_virtualchannel function to parcellate my source data obtained from ft_sourceanalysis, and time lock data of all trials from ft_covariance.<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">My code looks like the following: <br>
<br>
cfg = [];<br>
cfg.method = 'pca';<br>
cfg.pos = 'pos';<br>
parc_trls = ft_virtualchannel(cfg, tlck_all, dummy_source_trans, source_plot);<o:p></o:p></p>
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<p class="MsoNormal"><br>
Where source_plot is volume+label data, dummy_source_trans is source data, and tlck_all is time lock. The source plot is a downscaled, interpolated version of the AAL atlas (source data interpolated onto the AAL atlas). <o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">My structs look like the following: <o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">tlck_all = <o:p></o:p></p>
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<p class="MsoNormal"> <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">time: [1×1018 double] <o:p></o:p></p>
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<p class="MsoNormal">label: {245×1 cell} <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">grad: [1×1 struct] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">sampleinfo: [141×2 double] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">trial: [141×245×1018 double] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">trialinfo: [141×2 double] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">dimord: 'rpt_chan_time' <o:p></o:p></p>
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<p class="MsoNormal">cov: [141×245×245 double] <o:p></o:p></p>
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<p class="MsoNormal">cfg: [1×1 struct] <o:p></o:p></p>
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<p class="MsoNormal">avg: [1×1 struct]<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">dummy_source_trans = <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">time: 0 <o:p></o:p></p>
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<p class="MsoNormal">cfg: [1×1 struct] <o:p></o:p></p>
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<p class="MsoNormal">dim: [26 33 28] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">inside: [24024×1 logical] <o:p></o:p></p>
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<p class="MsoNormal">pos: [24024×3 double] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">method: 'average' <o:p></o:p></p>
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<p class="MsoNormal">avg: [1×1 struct]<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">source_plot = <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">dim: [26 33 28] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">transform: [4×4 double] <o:p></o:p></p>
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<p class="MsoNormal">unit: [1×1 struct] <o:p></o:p></p>
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<p class="MsoNormal">tissue: [26×33×28 double] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">tissuelabel: {1×116 cell} <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">cfg: [1×1 struct] <o:p></o:p></p>
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<p class="MsoNormal">inside: [24024×1 logical] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">pow: [24024×1 double] <span class="apple-converted-space"> </span><o:p></o:p></p>
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<p class="MsoNormal">eta: [24024×1 double]<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">I receive the following error when trying to run the ft_virtualchannel: Error using ft_virtualchannel (line 175): the requested dipole position is > 1 mm away from the closest source position. I've used cfg.parcellation = 'tissue' instead
of cfg.pos, I've played around with the measurement units of the time lock, source, and atlas data.<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">I've also tried to use ft_dipolefitting on tlck_all, but I receive the following error: <o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">Unrecognized field name "avg". Error in ft_dipolefitting (line 269)Vdata = data.avg(seldata, :);<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">This error persists both when I include 'avg' included and not included in the struct. <o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">I wonder if you might have any tips on how to run the ft_virtualchannel properly. I can of course provide more details if necessary. <o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">Thanks in advance!<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">Best,Marta<o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:10.5pt;font-family:Helvetica">_______________________________________________<br>
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<p class="MsoNormal"><o:p> </o:p></p>
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