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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US">Hi
</span>Jan-Mathijs,<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I want to do source analysis. I have 3 blocks with 40 trials each for one subject and want to do the source analysis. Yes, you pointed it correctly “<i>ft_appenddata throws the grad-field away, since it recognizes that the channel (and
coil) positions are different in each of the runs.</i>” Please advise me how to do the source analysis on them.
<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Best regards,<o:p></o:p></p>
<p class="MsoNormal">Pramod<o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US"><o:p> </o:p></span></p>
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<p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif"> fieldtrip [mailto:fieldtrip-bounces@science.ru.nl]
<b>On Behalf Of </b>Schoffelen, J.M. (Jan Mathijs)<br>
<b>Sent:</b> 19 November 2018 19:51<br>
<b>To:</b> FieldTrip discussion list <fieldtrip@science.ru.nl><br>
<b>Subject:</b> Re: [FieldTrip] Combine multiple blocks<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Pramod, <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 don’t understand how ‘combining all the three blocks before the preprocessing’ would help you to preserve the channel positions. Apparently, these are different for each of the blocks in your case. It’s also not clear to me, why this
is causes problem in your specific case. <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Anyway, ft_appenddata throws the grad-field away, since it recognizes that the channel (and coil) positions are different in each of the runs.<o:p></o:p></p>
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<p class="MsoNormal">If you still want to obtain some kind of ‘average’ representation of the channel position, you can use ft_average_sens. If the positions are not altogether too different, it might be OK to average the positions across blocks, although technically
it’s of course incorrect to do so. Yet, if for each of the blocks you have applied block-specific spatial transformations (e.g. maxfilter) then it’s a different story altogether, and things will become hairy very rapidly.<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 wishes,<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Jan-Mathijs<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 19 Nov 2018, at 19:19, Gaur, Pramod <<a href="mailto:p.gaur@ulster.ac.uk">p.gaur@ulster.ac.uk</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"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Dear Team,<span class="apple-converted-space"> </span><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 have a quick concern, I have a cognitive task and recorded three blocks. Is there any way in which I can combine all the three blocks before the preprocessing. I have alternate
to preprocess the blocks separately and then combining them. In this case, I lose the<span class="apple-converted-space"> </span></span><span style="font-size:10.0pt;font-family:"Courier New"">data_MEG_filt .</span><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">grad.chanpos
location.<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"">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""> cfg.dataset = filename;</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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% % cfg = ft_definetrial(cfg);</span></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""> cfg.trialdef.eventtype =<span class="apple-converted-space"> </span><span style="color:#A020F0">'STI101'</span>;</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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">%cfg.trialdef.eventtype = 'gui';</span></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""> cfg.trialdef.eventvalue = [16 17 18 32 33 34]<span style="color:forestgreen">% 17 18];% put your own</span></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""> cfg.trialdef.prestim = prestim;</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""> cfg.trialdef.poststim = poststim;</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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% cfg.length = 1;</span></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""> cfg = ft_definetrial(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""> </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""> <span style="color:forestgreen">% read in the data from the magnetometer</span></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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% cfg.channel = {'MEGMAG','STI101'};</span></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""> cfg.channel = {<span style="color:#A020F0">'MEG'</span>};<span style="color:forestgreen">%,'-MEG2331','-MEG0122'};%%{'MEG*2','MEG*3'};%selected_sensors;%{'MEG'};%</span></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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% cfg.lpfilter = 'yes';</span></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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% cfg.lpfreq = 40;</span></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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% cfg.hpfilter = 'yes';</span></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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% cfg.hpfreq = 1;</span></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""> cfg.continuous =<span class="apple-converted-space"> </span><span style="color:#A020F0">'yes'</span>;</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""> cfg.detrend =<span class="apple-converted-space"> </span><span style="color:#A020F0">'no'</span>;</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""> cfg.demean =<span class="apple-converted-space"> </span><span style="color:#A020F0">'yes'</span>;</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""> cfg.dftfilter =<span class="apple-converted-space"> </span><span style="color:#A020F0">'yes'</span>;</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""> <span class="apple-converted-space"> </span><span style="color:forestgreen">% cfg.dftfreq =[50 100 150];% power line noise</span></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""> cfg.bpfreq = [1 48];</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""> cfg.metric =<span class="apple-converted-space"> </span><span style="color:#A020F0">'zvalue'</span>;</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""> cfg.layout =<span class="apple-converted-space"> </span><span style="color:#A020F0">'neuromag306all.lay'</span>;</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""> cfg.baselinewindow = [-0.5 0];</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""> data_MEG_filt = ft_preprocessing(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""> </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:forestgreen"> if isempty(data_MEG_filt)</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:forestgreen"> data_MEG_filt=data;</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:forestgreen"> grad = data.grad;</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:forestgreen"> else</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:forestgreen"> 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:forestgreen"> data_MEG_filt = ft_appenddata(cfg, data_MEG_filt,data);</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:forestgreen"> end</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"> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Any advice will be highly appreciated.<span class="apple-converted-space"> </span><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:"Arial",sans-serif"> </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"><image001.jpg><o:p></o:p></span></p>
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<p class="MsoNormal" style="margin-bottom:1.5pt"><b><span style="font-size:10.5pt;font-family:"Arial",sans-serif;color:#1A2A4F">Dr Pramod Gaur</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:10.0pt;font-family:"Arial",sans-serif">Research Assistant in Neuro-Imaging Technology</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" style="margin-bottom:1.5pt"><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49">School of Computing, Engineering and Intelligent Systems</span><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"><o:p></o:p></span></p>
<p class="MsoNormal" style="margin-bottom:1.5pt"><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49">Magee Campus</span><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"><o:p></o:p></span></p>
<p class="MsoNormal" style="margin-bottom:1.5pt"><b><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#BBA461">E:</span></b><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49"> <a href="mailto:p.gaur@ulster.ac.uk"><span style="color:#954F72">p.gaur@ulster.ac.uk</span></a><span class="apple-converted-space"> </span> </span><b><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#BBA461">W:</span></b><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49"> </span><a href="http://www.ulster.ac.uk/"><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#954F72">www.ulster.ac.uk</span></a><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:9.0pt;font-family:"Arial",sans-serif;color:#BBA461">Social:</span></b><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49"> Twitter:<span class="apple-converted-space"> </span><a href="https://twitter.com/SceisUni"><span style="color:#954F72">@SceisUni</span></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:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49">Facebook:<span class="apple-converted-space"> </span></span><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"><a href="https://www.facebook.com/UlsterUniComputingEngineeringIntellientSystems/"><span style="color:#954F72">@UlsterUniComputingEngineeringIntelligentSystems</span></a><o:p></o:p></span></p>
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<p class="MsoNormal" style="margin-bottom:1.5pt"><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49"> </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" style="margin-bottom:1.5pt"><span style="font-size:9.0pt;font-family:"Arial",sans-serif;color:#4A4A49"><image003.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: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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This email and any attachments are confidential and intended solely for the use of the addressee and may contain information which is covered by legal, professional or other privilege. If you have received this email in error please notify the system manager
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The University's computer systems may be monitored and communications carried out on them may be recorded to secure the effective operation of the system and for other lawful purposes. Ulster University does not guarantee that this email or any attachments
are free from viruses or 100% secure. Unless expressly stated in the body of a separate attachment, the text of email is not intended to form a binding contract. Correspondence to and from the University may be subject to requests for disclosure by 3rd parties
under relevant legislation. <br>
<b>The Ulster University was founded by Royal Charter in 1984 and is registered with company number RC000726 and VAT registered number GB672390524.The primary contact address for Ulster University in Northern Ireland is Cromore Road, Coleraine, Co. Londonderry
BT52 1SA</b> <br>
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