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Dear Tibor,
<div class=""><br class="">
</div>
<div class="">It’s not clear to me what’s special about spm’s ‘unified segmentation’ regarding the creation of source models. </div>
<div class=""><br class="">
</div>
<div class="">I assume you are aware that source models eventually need to be in the subject’s native space in order for them to be useable.</div>
<div class=""><br class="">
</div>
<div class="">Documentation about how to create a source model for EEG/MEG source reconstruction can be found at: <a href="http://www.fieldtriptoolbox.org/tutorial/sourcemodel/" class="">http://www.fieldtriptoolbox.org/tutorial/sourcemodel/</a>, which might
be a good starting point. </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 28 Sep 2020, at 10:03, <a href="mailto:tibor.auer@gmail.com" class="">
tibor.auer@gmail.com</a> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
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<span lang="EN-GB" class="">Hi Jan-Mathijs,<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Thank you for your response. I found that post earlier and noticed that I may need to redo the freqanalysis, however, I still do not know how do I create the<span class="Apple-converted-space"> </span><i class="">sourcemodel</i><span class="Apple-converted-space"> </span>from
the T1-weighted MRI images already segmented with SPM12.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Kind regards,<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Tibor<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span lang="EN-GB" style="color: rgb(34, 42, 53);" class="">Auer, Tibor M.D. Ph.D.<o:p class=""></o:p></span></b></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span lang="EN-GB" style="color: rgb(0, 102, 255);" class="">Research Fellow<o:p class=""></o:p></span></b></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span lang="EN-GB" style="color: rgb(0, 102, 255);" class="">School of Psychology, Faculty of Health and Medical Sciences</span></b><span lang="EN-GB" style="color: rgb(0, 102, 255);" class=""><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">University of Surrey, Guildford GU2 7XH<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><a href="mailto:T.Auer@surrey.ac.uk" style="color: blue; text-decoration: underline;" class=""><span style="color: rgb(5, 99, 193);" class="">T.Auer@surrey.ac.uk</span></a><u class=""><span style="color: rgb(5, 99, 193);" class=""><o:p class=""></o:p></span></u></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><a href="https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Ftwitter.com%2FTiborAuer&data=02%7C01%7Ct.auer%40surrey.ac.uk%7Cdb32da458c424eedef2908d7d4bd1421%7C6b902693107440aa9e21d89446a2ebb5%7C0%7C0%7C637211780868086968&sdata=zrT5%2FnGGsar14C3WartuU99tzsfLu30Peh9fuaqrAUg%3D&reserved=0" style="color: blue; text-decoration: underline;" class=""><span style="color: rgb(5, 99, 193);" class="">@TiborAuer</span></a><o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
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<b class=""><span lang="EN-GB" class="">From:</span></b><span lang="EN-GB" class=""><span class="Apple-converted-space"> </span>fieldtrip <<a href="mailto:fieldtrip-bounces@science.ru.nl" style="color: blue; text-decoration: underline;" class="">fieldtrip-bounces@science.ru.nl</a>><span class="Apple-converted-space"> </span><b class="">On
Behalf Of<span class="Apple-converted-space"> </span></b>Schoffelen, J.M. (Jan Mathijs)<br class="">
<b class="">Sent:</b><span class="Apple-converted-space"> </span>Thursday, September 24, 2020 8:12 AM<br class="">
<b class="">To:</b><span class="Apple-converted-space"> </span>FieldTrip discussion list <<a href="mailto:fieldtrip@science.ru.nl" style="color: blue; text-decoration: underline;" class="">fieldtrip@science.ru.nl</a>><br class="">
<b class="">Subject:</b><span class="Apple-converted-space"> </span>Re: [FieldTrip] eLORETA source analysis<o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Hi Tibor,<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Some of this is discussed (and fixed, there were some small issues in the code) in <a href="https://github.com/fieldtrip/fieldtrip/issues/1454" style="color: blue; text-decoration: underline;" class="">https://github.com/fieldtrip/fieldtrip/issues/1454</a> and
the PR that is linked in the linked issue.<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Note: if you want to go from sensor-level to source-level data in the frequency domain, you should either use ‘powandcsd’, or ‘fourier’ as cfg.output argument to ft_freqanalysis.<o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Best wishes,<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Jan-Mathijs<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
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<span lang="EN-GB" class=""><br class="">
<br class="">
<o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">On 23 Sep 2020, at 13:42,<span class="Apple-converted-space"> </span><a href="mailto:tibor.auer@gmail.com" style="color: blue; text-decoration: underline;" class="">tibor.auer@gmail.com</a><span class="Apple-converted-space"> </span>wrote:<o:p class=""></o:p></span></div>
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<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
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<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Dear Community,<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <o:p class=""></o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">I would like to perform an eLORETA source analysis, however, I am unsure about the steps.<span class="apple-converted-space"> </span><o:p class=""></o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">I am working on the<span class="apple-converted-space"> </span><a href="http://fcon_1000.projects.nitrc.org/indi/retro/MPI_LEMON.html" style="color: blue; text-decoration: underline;" class=""><span style="color: rgb(5, 99, 193);" class="">LEMON
data</span></a><span class="apple-converted-space"> </span>including 62-channel EEG experiment at rest and structural (T1-weighted) MRI of >200 participants.<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">I have preprocessed the EEG data and performed timefrequency analysis on the 2-second-long epochs with configuration:<o:p class=""></o:p></span></div>
</div>
<ul type="disc" style="margin-bottom: 0cm; margin-top: 0cm;" class="">
<ul type="circle" style="margin-bottom: 0cm; margin-top: 0cm;" class="">
<li class="MsoListParagraph" style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" class="">method: 'mtmfft'<o:p class=""></o:p></span></li><li class="MsoListParagraph" style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" class="">taper: 'hanning'<o:p class=""></o:p></span></li><li class="MsoListParagraph" style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" class="">foi: [0.9766 1.9531 3.9062 5.8594 7.8125 12.2070 15.1367 20.0195 24.9023 32.2266 40.0391 60.0586 69.8242 80.0781 95.2148 109.8633 120.1172]<o:p class=""></o:p></span></li><li class="MsoListParagraph" style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" class="">pad: 2.0480<o:p class=""></o:p></span></li><li class="MsoListParagraph" style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" class="">output: 'pow'<o:p class=""></o:p></span></li><li class="MsoListParagraph" style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" class="">keeptrials: 'no'<o:p class=""></o:p></span></li><li class="MsoListParagraph" style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" class="">trials: [233×1 double]<o:p class=""></o:p></span></li></ul>
</ul>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">I have also processed the MRI images and normalised-segmented them using SPM12’s unified segmentation outside FieldTrip.<o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <o:p class=""></o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">I would appreciate any help including code snippets, pointers to (order of) functions or specific and detailed tutorials.<o:p class=""></o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Kind regards,<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Tibor<span class="apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<span lang="EN-GB" class=""> <o:p class=""></o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span lang="EN-GB" style="color: rgb(34, 42, 53);" class="">Auer, Tibor M.D. Ph.D.</span></b><span lang="EN-GB" class=""><o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span lang="EN-GB" style="color: rgb(0, 102, 255);" class="">Research Fellow</span></b><span lang="EN-GB" class=""><o:p class=""></o:p></span></div>
</div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span lang="EN-GB" style="color: rgb(0, 102, 255);" class="">School of Psychology, Faculty of Health and Medical Sciences</span></b><span lang="EN-GB" class=""><o:p class=""></o:p></span></div>
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<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">University of Surrey, Guildford GU2 7XH<o:p class=""></o:p></span></div>
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