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Dear Fieldtrip community,
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<div class="">I am a PhD student from Germany and I am working with EEG data. I would like to do Beamformer source analyses on power data. </div>
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<div class="">I don’t have individual MRIs or related electrode positions available, so I am taking the standard MRI and BEM headmodel from the fieldtrip templates. Doing the source_analyses, I am getting an error message. Can anyone tell me if I missed something
and what the reason for that error is? The error appears when running the last part of the script ft_sourceanalyses:</div>
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<div class="">the input is freq data with 64 channels, 1 frequencybins and no timebins</div>
<div class="">Undefined function or variable 'fieldname'.</div>
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<div class="">Error in ft_checkconfig (line 307)</div>
<div class=""> for i=1:length(fieldname)</div>
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<div class="">Error in ft_sourceanalysis (line 217)</div>
<div class="">cfg = ft_checkconfig(cfg, 'createtopcfg', cfg.method);</div>
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<div class="">Error in BEAMformer (line 116)</div>
<div class="">sourceAll = ft_sourceanalysis(cfg, frequ_all);</div>
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<div class="">I added my code below. I would appreciate any help. I added information on my existing variables below the code.</div>
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<div class="">Best, Patrick</div>
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<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier; color: rgb(34, 139, 34);" class="">
%% import EEG data</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
EEG_Data = eeglab2fieldtrip( EEG, <span style="color: #a020f0" class="">'raw'</span>,
<span style="color: #a020f0" class="">'none'</span> );</div>
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<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier; color: rgb(34, 139, 34);" class="">
%% define trials for frequency analyses</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg = [];</div>
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cfg.trials = Indexes_correct{1, 1};</div>
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cfg.toilim = [0.25 0.55];</div>
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data_fed_correct = ft_redefinetrial(cfg, EEG_Data);</div>
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cfg = [];</div>
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cfg.trials = Indexes_incorrect{1, 1};</div>
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cfg.toilim = [0.25 0.55];</div>
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data_fed_incorrect = ft_redefinetrial(cfg, EEG_Data);</div>
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<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier; color: rgb(34, 139, 34);" class="">
%% run frequenc analyses</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg = [];</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.method = <span style="color: #a020f0" class="">'mtmfft'</span>;</div>
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cfg.output = <span style="color: #a020f0" class="">'powandcsd'</span>;</div>
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cfg.tapsmofrq = 4;</div>
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cfg.foilim = [25 25];</div>
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frequ_correct = ft_freqanalysis(cfg, data_fed_correct);</div>
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cfg = [];</div>
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cfg.method = <span style="color: #a020f0" class="">'mtmfft'</span>;</div>
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cfg.output = <span style="color: #a020f0" class="">'powandcsd'</span>;</div>
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cfg.tapsmofrq = 4;</div>
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cfg.foilim = [25 25];</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
frequ_incorrect = ft_freqanalysis(cfg, data_fed_incorrect);</div>
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cfg = [];</div>
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cfg.method = <span style="color: #a020f0" class="">'mtmfft'</span>;</div>
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cfg.output = <span style="color: #a020f0" class="">'powandcsd'</span>;</div>
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cfg.tapsmofrq = 4;</div>
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cfg.foilim = [25 25];</div>
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frequ_all = ft_freqanalysis(cfg,EEG_Data);</div>
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<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier; color: rgb(34, 139, 34);" class="">
%% load MRI and BEM templates</div>
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<span style="color: #000000" class="">load(</span>'/Users/patrickwiegel/Documents/MATLAB/Scripts/2020/TF_Data/fieldtrip-20200603/template/headmodel/standard_bem.mat'<span style="color: #000000" class="">)</span></div>
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<span style="color: #000000" class="">load(</span>'/Users/patrickwiegel/Documents/MATLAB/Scripts/2020/TF_Data/fieldtrip-20200603/template/headmodel/standard_mri.mat'<span style="color: #000000" class="">)</span></div>
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%% segment mri </div>
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cfg = [];</div>
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cfg.write = <span style="color: #a020f0" class="">'no'</span>;</div>
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[segmentedmri] = ft_volumesegment(cfg, mri);</div>
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disp(segmentedmri)</div>
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%% </div>
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mri = ft_volumereslice(cfg, segmentedmri);</div>
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display(mri)</div>
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%% align electrodes</div>
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<span style="color: #000000" class="">load(</span>'elec_aligned'<span style="color: #000000" class="">)</span></div>
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elec_aligned = ft_convert_units(elec_aligned, <span style="color: #a020f0" class="">
'cm'</span>);</div>
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<span style="color: #000000" class="">vol = ft_convert_units(vol, </span><span style="color: #a020f0" class="">'cm'</span><span style="color: #000000" class="">);
</span>% Convert the vol to cm, because the CTF convenction is to express everything in cm.</div>
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%%</div>
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[headmodel, elec_aligned]=ft_prepare_vol_sens (vol,elec_aligned);</div>
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cfg = [];</div>
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cfg.method = <span style="color: #a020f0" class="">'interactive'</span>;</div>
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cfg.elec = elec_aligned;</div>
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cfg.headshape = headmodel.bnd(1);</div>
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elec_aligned = ft_electroderealign(cfg);</div>
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%%</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier; color: rgb(34, 139, 34);" class="">
% construct the dipole grid in the template brain coordinates</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier; color: rgb(34, 139, 34);" class="">
% the negative inwardshift means an outward shift of the brain surface for inside/outside detection</div>
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cfg = [];</div>
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cfg.resolution = 1;</div>
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cfg.tight = <span style="color: #a020f0" class="">'yes'</span>;</div>
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cfg.inwardshift = -1.5;</div>
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cfg.headmodel = headmodel;</div>
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sourcemodel = ft_prepare_sourcemodel(cfg);</div>
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%%</div>
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cfg = [];</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.method = <span style="color: #a020f0" class="">'dics'</span>;</div>
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cfg.frequency = 25;</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.sourcemodel = sourcemodel;</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.headmodel = headmodel;</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.elec = elec_aligned;</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.dics.projectnoise = <span style="color: #a020f0" class="">'yes'</span>;</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.dics.lambda = <span style="color: #a020f0" class="">'5%'</span>;</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
cfg.dics.keepfilter = <span style="color: #a020f0" class="">'yes'</span>;</div>
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cfg.dics.realfilter = <span style="color: #a020f0" class="">'yes'</span>;</div>
<div style="margin: 0px; font-stretch: normal; font-size: 10px; line-height: normal; font-family: Courier;" class="">
sourceAll = ft_sourceanalysis(cfg, frequ_all);</div>
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<div class="">sourcemodel = </div>
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<div class=""> struct with fields:</div>
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<div class=""> dim: [17 22 18]</div>
<div class=""> pos: [6732×3 double]</div>
<div class=""> unit: 'cm'</div>
<div class=""> inside: [6732×1 logical]</div>
<div class=""> cfg: [1×1 struct]</div>
</div>
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<div class="">elec_aligned = </div>
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<div class=""> struct with fields:</div>
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</div>
<div class=""> chanpos: [64×3 double]</div>
<div class=""> chantype: {64×1 cell}</div>
<div class=""> chanunit: {64×1 cell}</div>
<div class=""> elecpos: [64×3 double]</div>
<div class=""> homogeneous: [4×4 double]</div>
<div class=""> label: {1×64 cell}</div>
<div class=""> tra: [64×64 double]</div>
<div class=""> type: 'eeg1010'</div>
<div class=""> unit: 'cm'</div>
<div class=""> cfg: [1×1 struct]</div>
</div>
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<div class="">headmodel = </div>
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<div class=""> struct with fields:</div>
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<div class=""> bnd: [1×3 struct]</div>
<div class=""> cond: [0.3300 0.0041 0.3300]</div>
<div class=""> mat: [64×3000 double]</div>
<div class=""> type: 'dipoli'</div>
<div class=""> unit: 'cm'</div>
<div class=""> skin_surface: 1</div>
<div class=""> inner_skull_surface: 3</div>
<div class=""> source: 3</div>
</div>
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</div>
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<div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
<b class="">Patrick Wiegel</b><br class="">
<font color="#680823" class="">Department of Sport and Sport Science</font>
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University of Freiburg <br class="">
Sandfangweg 4<br class="">
79117 Freiburg i. Br . <br class="">
<br class="">
<div class="">phone: +49 (0)761/ 203-4550<br class="">
<a href="mailto:patrick.wiegel@sport.uni-freiburg.de" class="">email: patrick.wiegel@sport.uni-freiburg.de</a><br class="">
web: www.sport.uni-freiburg.de</div>
</div>
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