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<font size="4" class="">Hi Kinkini,</font>
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<div class=""><font size="4" class="">I don’t have any concrete suggestions here. Perhaps you should try and first pinpoint the potential cause of the issue yourself. If you dump an entire pipeline in an e-mail, it is unclear to us where we should focus on.
Specifically, it is not clear whether any upstream processing steps are relevant at all for the issue you are facing. You wrote: "but when I wanted to apply statistics on the data, I had errors”. This is so ill-conditioned that we can just guess as to what
is going wrong for you. </font></div>
<div class=""><font size="4" class="">Perhaps consult <a href="http://www.fieldtriptoolbox.org/faq/how_to_ask_good_questions_to_the_community/" class="">http://www.fieldtriptoolbox.org/faq/how_to_ask_good_questions_to_the_community/</a> to phrase your question
a bit more to-the-point.</font></div>
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<div class=""><font size="4" class="">Good luck,</font></div>
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<div class=""><font size="4" class="">Jan-Mathijs</font></div>
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<div class="">On 2 May 2020, at 22:22, Kinkini . <<a href="mailto:bkinkini@gmail.com" class="">bkinkini@gmail.com</a>> wrote:</div>
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<div dir="ltr" class="">Hello Jan,
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<div class="">Thank you so much for your comments. </div>
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<div class="">I am excluding bad channels while applying CAR. </div>
<div class="">Also, I tried excluding bad channels from ICA and interpolate them later. But as I had mentioned before, I am facing problems applying ft_freqstatistics. </div>
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<div class="">Any suggestion on that?</div>
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<div class="">Thanks again, </div>
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<div class=""><b class="">Kinkini</b></div>
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<div dir="ltr" class="gmail_attr">On Sat, May 2, 2020 at 1:51 PM Schoffelen, J.M. (Jan Mathijs) <<a href="mailto:jan.schoffelen@donders.ru.nl" class="">jan.schoffelen@donders.ru.nl</a>> wrote:<br class="">
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<div style="overflow-wrap: break-word;" class="">Hi Kinkini,
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<div class="">I would recommend not doing a CAR before you have removed bad channels.</div>
<div class="">Also, I would recommend not tu ‘repair’ any bad channels prior to running ICA.</div>
<div class="">Best wishes,</div>
<div class="">Jan-Mathijs</div>
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<div class="">On 1 May 2020, at 13:33, Kinkini . <<a href="mailto:bkinkini@gmail.com" target="_blank" class="">bkinkini@gmail.com</a>> wrote:</div>
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<div dir="ltr" class="">Dear FieldTripers,
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<div class="">Hope everyone is coping well with the current situation.</div>
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<div class="">I am relatively new in fieldtrip and I have been long stuck with using ft_channelrepair for quite sometime now.</div>
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<div class="">Briefly about my analysis pipeline:</div>
<div class="">1- Loading and epoching the data</div>
<div class="">2- ft_preprocessing - filtering, baselining, CAR</div>
<div class="">3- ft_databrowser - marking bad channels </div>
<div class=""><font style="background-color:rgb(252,229,205)" class="">4. ft_rejectvisual - rejecting bad channels; keepchannel = 'repair'</font></div>
<div class=""><font style="background-color:rgb(252,229,205)" class="">5. ft_channelrepair</font></div>
<div class="">6. ICA </div>
<div class="">7. TF Analysis</div>
<div class="">8. TF statististics</div>
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<div class="">I have problems pertaining to step 4 and 5. In step 4 I want to keep the bad channels so that I can interpolate them in the next step. When I use data browser to look thorough the data, the bad channels look okay. But the problem starts when I
perform ICA on them. My first observation is that the wchange value is very big (looks like this : 257868.69202720), but ICA runs completely. However the ICA component topoplots look weird (screenshots attached). However, when I look through the icabrowser plots
, there are peaks at physiological frequencies. </div>
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<div class="">In order to avoid this, I tried getting rid of the bad channels completely using ft_rejectvisual, perform ICA and then get back the missing channels using neighbourhood average. Doing this, I was able to perform TF analysis, but when I wanted
to apply statistics on the data, I had errors. Finally, I had to avoid the entire step of interpolation to be able to run everything and also perform statistics. But in a long run, I cannot avoid this step.</div>
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<div class="">I am finding no clue as to where is it going wrong. </div>
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<div class="">Hence, any idea, any clue from you all would help me very much. I am happy to provide with more details if necessary.</div>
<div class="">Thank you so much for your response.</div>
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<div class="">Best regards,</div>
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<div dir="ltr" class="">Kinkini Bhadra</div>
<div dir="ltr" class="">PhD student</div>
<div class="">Department of Fundamental Neurosciences</div>
<div dir="ltr" class="">University of Geneva</div>
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<span id="gmail-m_4773436516738468089cid:f_k9o3iwby0" class=""><Screenshot 2020-05-01 11.57.28.png></span><span id="gmail-m_4773436516738468089cid:f_k9o3iwce1" class=""><Screenshot 2020-05-01 11.57.42.png></span>_______________________________________________<br class="">
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