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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Dear Robert,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Thank you very much for the very quick reply and the explaining.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">I am a bit struggling in the exact usage of ft_slice_plot function. I was trying to dig up on an example usage but was unable to find any.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<pre><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">What does exactly in the use </span>ft_plot_slice(dat, ...) , dat <span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">argument stands for? Can you please explain me on how to plot a 2D slice using the function?<o:p></o:p></span></pre>
<pre><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></pre>
<pre><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Thank you very much again.<o:p></o:p></span></pre>
<pre><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Regards<o:p></o:p></span></pre>
<pre><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Imali</span><o:p></o:p></pre>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
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<p class="MsoNormal"><b><span lang="EN-US" style="font-size:10.0pt;font-family:"Tahoma","sans-serif"">From:</span></b><span lang="EN-US" style="font-size:10.0pt;font-family:"Tahoma","sans-serif""> fieldtrip-bounces@science.ru.nl [mailto:fieldtrip-bounces@science.ru.nl]
<b>On Behalf Of </b>Robert Oostenveld<br>
<b>Sent:</b> Monday, 9 July 2012 6:02 PM<br>
<b>To:</b> FieldTrip discussion list<br>
<b>Subject:</b> Re: [FieldTrip] plotting dipoles on an anatomical mri<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Dear Imali<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">The ft_sourceplot function was not designed to plot 3D data in combination with dipoles. If you use method=ortho, you can get the 3 intersections in the 3D volume at the location of the dipole. <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">For the best control over the details of the plot, which you need for your specific application of combining dipoles and volumetric data, I suggest that you look at the ft_plot_slice function. If you do three ft_plot_slice calls for the
three orientations (x,y,z) at the location of the dipole and combine that with ft_plot_dipole, you will probably visualize the 3D relation between the two types of data the clearest. Note that ft_plot_slice plots any slice in 3D, so you should use the 3D
rotate option of the MATLAB figure.<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 regards,<o:p></o:p></p>
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<p class="MsoNormal">Robert<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">On 9 Jul 2012, at 9:26, IMALI THANUJA HETTIARACHCHI wrote:<o:p></o:p></p>
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<o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">Dear fieldTrip users,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">I am doing a dipole fit with the ft_dipolefitting function and I can plot and visualize the results with ft_plot_dipole, further I also want to compare the results with a
beamformer results so, I tried plotting the ft_dipolefitting results with ft_sourceplot. I cannot yet very well understand how ft_sourceplot works, I understand that the dipole should be assigned with some value but cannot figure out how to do this.<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">Can someone please give me some help in doing this? Following is the code I am using, where should I modify?<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:black">cfg = [];</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:black">cfg.location = dip_fitted.dip.pos;</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:black">cfg.method=</span><span style="font-size:10.0pt;font-family:"Courier New";color:#A020F0">'ortho'</span><span style="font-size:10.0pt;font-family:"Courier New";color:black">;</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Courier New";color:black">ft_sourceplot(cfg,mri)</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">where<span class="apple-converted-space"> </span></span><span style="font-size:10.0pt;font-family:"Courier New";color:black">mri<span class="apple-converted-space"> </span></span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:black">is
the<span class="apple-converted-space"> </span></span><span style="font-size:10.0pt;font-family:"Courier New"">standard_mri.mat</span><span class="apple-converted-space"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> </span></span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">.
I work in the MNI coordinates and my locations are in mm’s.<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">Thank you very much in advance.<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">Kind regards<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif"">Imali<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><b><span style="font-size:11.0pt">Imali Thanuja Hettiarachchi</span></b><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">PhD Candidate</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">Centre for Intelligent Systems research</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">Deakin University,<span class="apple-converted-space"> </span></span><span style="font-size:10.0pt;color:black">Geelong 3217, Australia.</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;color:black">Email:<span class="apple-converted-space"> </span><a href="mailto:ith@deakin.edu.au">ith@deakin.edu.au</a><br>
</span><span style="font-size:11.0pt"><a href="http://www.deakin.edu.au/cisr">www.deakin.edu.au/cisr</a></span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt"> </span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif";color:black"><image001.jpg></span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif";color:black"> </span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif""> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:13.5pt;font-family:"Helvetica","sans-serif"">_______________________________________________<br>
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<p class="MsoNormal"><o:p> </o:p></p>
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