<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">hi,<div><br class="webkit-block-placeholder"></div><div>i am trying to do sourceanalysis on spontaneous activity data, i.e. there is no baseline condition (such as a pre-stimulus period). tried the approach using the "NAI" as described in the tutorial (Localizing oscillatory sources using beamformer techniques). however there apparently are problems. see more below.</div><div>data is 60 channel EEG, preprocessed in eeglab (ICA artefact correction + removal of bad data periods) and cut into non-overlapping "epochs" of 2 seconds. a fieldtrip structure was generated using eeglab2fieldtrip.</div><div><br class="webkit-block-placeholder"></div><div><div>>> data</div><div><br class="webkit-block-placeholder"></div><div>data = </div><div><br class="webkit-block-placeholder"></div><div> label: {1x60 cell}</div><div> fsample: 250</div><div> elec: [1x1 struct]</div><div> trial: {1x138 cell}</div><div> time: {1x138 cell}</div><div> cfg: [1x1 struct]</div><br class="webkit-block-placeholder"></div><div>then estimate power with freqanalysis:</div><div><br class="webkit-block-placeholder"></div><div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg=[];</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.method=</font><font face="Courier" size="3" color="#a020f0" style="font: 12.0px Courier; color: #a020f0">'mtmfft'</font><font face="Courier" size="3" style="font: 12.0px Courier">;</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.output=</font><font face="Courier" size="3" color="#a020f0" style="font: 12.0px Courier; color: #a020f0">'powandcsd'</font><font face="Courier" size="3" style="font: 12.0px Courier">;</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.foilim=[12 18];</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.tapsmofrq=1.5;</font></div><p style="margin: 0.0px 0.0px 0.0px 0.0px; min-height: 14.0px"><font face="Courier" size="3" style="font: 12.0px Courier"> </font><br class="khtml-block-placeholder"></p><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">freq4dics=freqanalysis(cfg,data);</font></div> <div><br class="webkit-block-placeholder"></div><div><div>>> freq4dics</div><div><br class="webkit-block-placeholder"></div><div>freq4dics = </div><div><br class="webkit-block-placeholder"></div><div> label: {1x60 cell}</div><div> dimord: 'chan_freq'</div><div> freq: [12 12.5000 13 13.5000 14 14.5000 15 15.5000 16 16.5000 17 17.5000 18]</div><div> powspctrm: [60x13 double]</div><div> labelcmb: {1770x2 cell}</div><div> crsspctrm: [1770x13 double]</div><div> elec: [1x1 struct]</div><div> cfg: [1x1 struct]</div></div><div><br></div><div>so far so good. now i'd like to do some sourceanalysis.</div><div><br class="webkit-block-placeholder"></div><div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg=[];</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.method=</font><font face="Courier" size="3" color="#a020f0" style="font: 12.0px Courier; color: #a020f0">'dics'</font><font face="Courier" size="3" style="font: 12.0px Courier">;</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.grid=grid;</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.vol=vol; %use of the standard BEM model</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" color="#228b22" style="font: 12.0px Courier; color: #228b22">cfg.lambda =[];</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.frequency=15;</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.projectnoise=</font><font face="Courier" size="3" color="#a020f0" style="font: 12.0px Courier; color: #a020f0">'yes'</font><font face="Courier" size="3" style="font: 12.0px Courier">;</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">cfg.elec=newelec;%electrode positions adapted to BEM released on FT-FTP (in standard_BEM)</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font class="Apple-style-span" face="Courier"><br></font></div> <div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Courier" size="3" style="font: 12.0px Courier">alphaS=sourceanalysis(cfg,freq4dics);</font></div> <br class="webkit-block-placeholder"></div>the problem here is that the noise is set to 0. while executing the code this warning message appears:</div><div><div>Warning: cross-spectral density matrix is rank deficient</div><div>> In beamformer_dics at 161</div><div> In sourceanalysis at 855</div><div><br class="webkit-block-placeholder"></div><div>a look at the code shows that in this case that the noise is set to lambda (empty and set to 0 per default). I then tried different lamdas but as results varied quite a lot I have an uneasy feeling doing it this way.</div><div><br class="webkit-block-placeholder"></div><div>question: is there something apparently wrong with the configs that leads to the problem of not being able to make a noise estimate from the CSD?</div></div><div><br class="webkit-block-placeholder"></div><div>cheers,</div><div>nathan<br><br><div> <span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0; "><span class="Apple-style-span" style="border-collapse: separate; 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"><span class="Apple-style-span" style="font-family: Gill Sans; ">--------------------------------</span></span></span></span></span></span></span></span></font></div><div><font class="Apple-style-span" face="Gill Sans" size="3"><span class="Apple-style-span" style="font-size: 13px;; font-family: Gill Sans; "><b style="font-family: Gill Sans; font-size: 13px; font-weight: bold; "><span class="Apple-style-span" style="font-family: Gill Sans; font-size: 13px; font-weight: bold; "><span class="Apple-style-span" style="font-family: Gill Sans; font-size: 13px; font-weight: bold; "><span class="Apple-style-span" style="font-family: Gill Sans; font-size: 13px; font-weight: bold; "><span class="Apple-style-span" style="font-family: Gill Sans; font-size: 13px; font-weight: bold; "><span class="Apple-style-span" style="font-family: Gill Sans; font-size: 13px; font-weight: bold; "><span class="Apple-style-span" style="font-family: Gill Sans; font-size: 13px; font-weight: bold; "><span class="Apple-style-span" style="font-family: Gill Sans; 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"><span class="Apple-style-span" style="font-family: Gill Sans; "><span class="Apple-style-span" style="font-family: Gill Sans; "><span class="Apple-style-span" style="font-family: Gill Sans; ">: </span></span></span></span><font class="Apple-style-span" face="Helvetica"><a href="http://web.mac.com/nathanweisz">http://web.mac.com/nathanweisz</a></font></span></span></span></span></font></div><div><font class="Apple-style-span" face="Gill Sans"><b>Neurotree</b>: <span class="Apple-style-span" style="font-family: Helvetica; "><a href="http://neurotree.org/neurotree/tree.php?pid=8692">http://neurotree.org/neurotree/tree.php?pid=8692</a></span></font></div><div><br class="webkit-block-placeholder"></div><div style="font-size: 9px; "><font class="Apple-style-span" color="#333333" face="Bitstream Vera Sans" size="4" style="font-size: 11px; ; color: rgb(51, 51, 51); font-family: Bitstream Vera Sans; "><span class="Apple-style-span" style="font-size: 10.8px; ; color: rgb(51, 51, 51); font-family: Bitstream Vera Sans; 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; color: rgb(51, 51, 51); font-family: Bitstream Vera Sans; "><span class="Apple-style-span" style="font-size: 10.8px; ; color: rgb(51, 51, 51); font-family: Bitstream Vera Sans; "><i style="color: rgb(51, 51, 51); font-family: Bitstream Vera Sans; font-size: 10.8px; font-style: italic; "><span class="Apple-style-span" style="color: rgb(51, 51, 51); font-family: Bitstream Vera Sans; font-size: 10.8px; font-style: italic; "><span class="Apple-style-span" style="color: rgb(51, 51, 51); font-family: Bitstream Vera Sans; font-size: 10.8px; font-style: italic; ">See <a href="http://www.gnu.org/philosophy/no-word-attachments.html">http://www.gnu.org/philosophy/no-word-attachments.html</a></span></span></i></span></font></div><span class="Apple-style-span" style="border-collapse: separate; border-spacing: 0px 0px; color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-align: auto; 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<p>The aim of this list is to facilitate the discussion between users of the FieldTrip toolbox, to share experiences and to discuss new ideas for MEG and EEG analysis.</p>
<p> http://listserv.surfnet.nl/archives/fieldtrip.html</p>
<p> http://www.ru.nl/fcdonders/fieldtrip/</p>