<div dir="ltr">Dear Jumana,<div><br></div><div>> I am trying to replicate a pipeline very precisely and this pipeline interpolates after ICA.<br></div><div class="gmail_extra"><br></div><div class="gmail_extra">Oops, is that true? But when I checked the latest description now, I found that they do NOT change channels after AMICA. Press 'refresh' button to update the page if you haven't done so.</div><div class="gmail_extra"><br></div><div class="gmail_extra">> If possible I would like to interpolate after, as I only need to work with the channel data after the ICA. <br></div><div class="gmail_extra"><br></div><div class="gmail_extra">If that's the goal, then I think it's fine. But test it carefully before you press the final button! If you are not confident, I recommend you use dead copy of my code and use the channel information in the end (assuming that my latest code does NOT interpolate channels after ICA).</div><div class="gmail_extra"><br></div><div class="gmail_extra">Makoto</div><div class="gmail_extra"><br></div><div class="gmail_extra"><br></div><div class="gmail_extra"><br><div class="gmail_quote">On Thu, Jan 12, 2017 at 11:31 PM, Ahmad, Jumana <span dir="ltr"><<a href="mailto:jumana.ahmad@kcl.ac.uk" target="_blank">jumana.ahmad@kcl.ac.uk</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
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Hi Makoto,<br>
I am trying to replicate a pipeline very precisely and this pipeline interpolates after ICA. I only wanted to remove the artefacts from the data and then convert back to channel data. If I delete the eye blink components and then convert back to raw data, -and
then delete all ICA info, such as the weights and activations etc, is it then safe for me to interpolate using the channel data (which now has blinks removed)?<br>
<br>
If I really have to avoid the situation, then how do you get around rank issues of interpolating before? I know you delete channels but how do you know how many to delete in relation to the number of channels interpolated. If possible I would like to interpolate
after, as I only need to work with the channel data after the ICA. <br>
<br>
Thank you again for your advice! Very much appreciated. <br><span class="gmail-">
Jumana <br>
------------------------------<wbr>------------<br>
Jumana Ahmad<br>
Post-Doctoral Research Worker in Cognitive Neuroscience<br>
EU-AIMS Longitudinal European Autism Project (LEAP) & SynaG Study<br></span>
Room M1.26.Department of Forensic and Neurodevelopmental Sciences (PO 23) | Institute of Psychiatry, Psychology & Neuroscience | King’s College London | 16 De Crespigny Park | London SE5 8AF<br>
<br>
Phone: 0207 848 5359| Email: <a href="mailto:jumana.ahmad@kcl.ac.uk" target="_blank">jumana.ahmad@kcl.ac.uk</a> | Website: <a href="http://www.eu-aims.eu" target="_blank">www.eu-aims.eu</a> | Facebook: <a href="http://www.facebook.com/euaims" target="_blank">www.facebook.com/euaims</a><br>
<br>
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<div id="gmail-m_-7367123479538496963divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> Makoto Miyakoshi <<a href="mailto:mmiyakoshi@ucsd.edu" target="_blank">mmiyakoshi@ucsd.edu</a>><br>
<b>Sent:</b> 13 January 2017 08:05:04<br>
<b>To:</b> Ahmad, Jumana<br>
<b>Cc:</b> <a href="mailto:eeglablist@sccn.ucsd.edu" target="_blank">eeglablist@sccn.ucsd.edu</a><br>
<b>Subject:</b> Re: [Eeglablist] ICA, re-referencing, interpolation</font>
<div> </div>
</div><div><div class="gmail-h5">
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<div dir="ltr">Dear Jumana,
<div><br>
</div>
<div>I encountered that kind of situation many times, which is why I thought it would be a nice idea to show the exact steps in the wiki page. Now you see my point!</div>
<div><br>
</div>
<div>Editing channels after ICA is DANGEROUS. There are even some phenomena that confused me to death which I still don't understand (and do not remember well any more). Some of EEGLAB's check function can detect the change of channel number difference and
inconsistency with EEG.ica-items, but not all the operations are not supported, particualy any behavior outside GUI (but the worst mysterious case I experienced was replicated even using GUI, so I guess it was like I was performing bug finding in EEGLAB, as
if several test players plays an alpha version of a computer game trying to do the weirdest things to find bugs.)</div>
<div><br>
</div>
<div>So, my advice is that DO NOT EDIT CHANNELS AFTER ICA. Once the mixing matrix is confused and how it happened, you are done. Just stay away from that situation.</div>
<div><br>
</div>
<div>I appreciate though you have been doing exploration! I'm glad to see that at least other guys than I experience the same issues. </div>
<div><br>
</div>
<div>From Lufthansa455 to Frankfurt,</div>
<div><br>
</div>
<div>Makoto</div>
<div><br>
</div>
<div><br>
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<div class="gmail_extra"><br>
<div class="gmail_quote">On Wed, Jan 4, 2017 at 9:06 AM, Ahmad, Jumana <span dir="ltr">
<<a href="mailto:jumana.ahmad@kcl.ac.uk" target="_blank">jumana.ahmad@kcl.ac.uk</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
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<div class="gmail-m_-7367123479538496963m_-3838460540513318786WordSection1">
<p class="MsoNormal">Dear EEGLab,<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">I do not include noisy channels in ICA which I only do to remove eye related components, and specifically want to interpolate then after ICA for rank reasons. I have now done this to over 100 datasets.
<u></u><u></u></p>
<p class="MsoNormal">However, once I interpolate and then re-reference my data to the average, I get the error: Error: some channels not used for ICA decomposition are used for rereferencing<u></u><u></u></p>
<p class="MsoNormal"> the ICA decomposition has been removed<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">However, I purposefully wanted to interpolate these after ICA, and then use them for the average.<u></u><u></u></p>
<p class="MsoNormal">Is my eye-blink removal via ICA now affected and undone? <u>
</u><u></u></p>
<p class="MsoNormal">I would appreciate any advice.<u></u><u></u></p>
<p class="MsoNormal">Best wishes,<u></u><u></u></p>
<p class="MsoNormal">Jumana <u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal" style="background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-origin:initial;background-clip:initial;background-color:white"><b><span style="font-size:10pt;color:rgb(31,73,125)">------------------------------<wbr>------------</span></b><span style="font-family:helvetica,sans-serif;color:black"><u></u><u></u></span></p>
<p class="MsoNormal" style="background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-origin:initial;background-clip:initial;background-color:white"><b><span style="font-size:10pt;color:rgb(31,73,125);background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-origin:initial;background-clip:initial;background-color:rgb(255,238,148)">Jumana Ahmad</span></b><span style="font-family:helvetica,sans-serif;color:black"><u></u><u></u></span></p>
<p class="MsoNormal" style="background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-origin:initial;background-clip:initial;background-color:white"><span style="font-size:10pt;color:rgb(31,73,125)">Post-Doctoral Research Worker in Cognitive Neuroscience </span><span style="font-family:helvetica,sans-serif;color:black"><u></u><u></u></span></p>
<p class="MsoNormal" style="background-image:initial;background-position:initial;background-size:initial;background-repeat:initial;background-origin:initial;background-clip:initial;background-color:white"><i><span style="font-size:10pt;color:rgb(31,73,125)">EU-AIMS Longitudinal European Autism Project (LEAP) & SynaG Study</span></i><span style="font-family:helvetica,sans-serif;color:black"><u></u><u></u></span></p>
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Park | London SE5 8AF</span><span style="font-family:helvetica,sans-serif;color:black"><u></u><u></u></span></p>
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-- <br>
<div class="gmail-m_-7367123479538496963gmail_signature">
<div dir="ltr">Makoto Miyakoshi<br>
Swartz Center for Computational Neuroscience<br>
Institute for Neural Computation, University of California San Diego<br>
</div>
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</blockquote></div><br><br clear="all"><div><br></div>-- <br><div class="gmail_signature"><div dir="ltr">Makoto Miyakoshi<br>Swartz Center for Computational Neuroscience<br>Institute for Neural Computation, University of California San Diego<br></div></div>
</div></div>