<div dir="ltr"><div class="gmail_default" style="font-family:verdana,sans-serif">Dear Iris,<br></div><div class="gmail_default" style="font-family:verdana,sans-serif">you should press Y and specify the coordinate system following the questions that will appear on the command window (you will be asked to specify whether your coordinate sytsem is ras or lps and so on and where the origin of the coordinate system is located). afterwards, the GUI will display the electrodes and the head of the subject as well. You should then be able to align the electrode by simply applying translation/rotation or whatever you need make the electrode fit on the head surface.<br><br></div><div class="gmail_default" style="font-family:verdana,sans-serif">In case you want to use the methiod 'fiducials', you should have recorded together with the elctrode positions some anatomical landmarks that you can easily find in the MRI of the subject. If you did not record such landmarks during the acquisition of the electrode positions, than I guess your only option is to use the method 'interactive'<br><br></div><div class="gmail_default" style="font-family:verdana,sans-serif">Hope this helps!<br></div><div class="gmail_default" style="font-family:verdana,sans-serif">Best,<br></div><div class="gmail_default" style="font-family:verdana,sans-serif">Debora<br></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Tue, Feb 16, 2016 at 6:07 PM, Steinmann, Iris <span dir="ltr"><<a href="mailto:iris.steinmann@med.uni-goettingen.de" target="_blank">iris.steinmann@med.uni-goettingen.de</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
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<p class="MsoNormal"><span lang="EN-US">Hi FieldTripper,<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">I want to do source reconstruction with my EEG data and try to align my electrodes to the headmodel (calculated with my own MR data)<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">(following this description: <a href="http://www.fieldtriptoolbox.org/example/align_eeg_electrode_positions_to_bem_headmodel" target="_blank">http://www.fieldtriptoolbox.org/example/align_eeg_electrode_positions_to_bem_headmodel</a>)
<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">I run the ft_electroderealign function with the following options:<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">cfg = [];<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">cfg.method = 'interactive';<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">cfg.elec = elec;<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">cfg.headshape = vol.bnd(1);<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">elec_new = ft_electroderealign(cfg);<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">But all I get is a figure showing a coordinate system with my electrodepositions. The scull saved in vol.bnd(1) is not plotted.<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">(I attached a jpg of the figure). <u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">The MATLAB panel asked me: "Do you want to change the anatomical labels for the axes [Y, n]? "<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">If I say 'no', I get the following error:
<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">Undefined function or variable 'template'.<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">Error in ft_electroderealign (line 244)<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"> for j=1:length(template) <u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"> <u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">I tried the ft_electroderealign function with the cfg.method = 'fiducials', but ended up with the same figure and the same question in
<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">the MATLAB panel.<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="EN-US">Would be great if someone could help me to figure out what's going wrong here and how I can align my electrodes to the headmodel.<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="EN-US"><u></u> <u></u></span></p>
<p class="MsoNormal">Thanks!<u></u><u></u></p>
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