[Eeglablist] interpolation of bad channels after ICA

[Makoto Miyakoshi]

Dear Marco,

> (and sorry for the 1 year delay!)

I'm rather surprised that you still remember it. I appreciate you have not
forgot the question, because it is important.

I read your question. I believe my updated pipeline page answeres your
question how to do it. See 'Remove bad channels' and 'Interpolate removed
channels'.
https://sccn.ucsd.edu/wiki/Makoto's_preprocessing_pipeline

I hope your year-long problem is finally answered!

Makoto



On Fri, Oct 21, 2016 at 1:17 AM, Marco Buiatti <marco.buiatti at gmail.com>
wrote:

> Dear Makoto and John,
>
> thanks for your feedback and links to advanced preprocessing tools (and
> sorry for the 1 year delay!).
>
> However, I still do not have an answer to my basic question on EEGLAB's
> current options for reinterpolating removed channels.
>
> I reformulate it here:
>
> I would like to:
>
> 1) Remove bad channels
> 2) Run ICA and remove artefacted ICs
> 3) Reinterpolate bad channels, preferably back in the same channel order
> as before (e.g. if I removed channel 12, I would like it to be back as the
> 12th channel)
>
> The button 'Select from removed channels' in Tools > Interpolate Electrodes
> seems perfect to perform this operation, but if I remove channels following
> EEGLAB's instructions (https://sccn.ucsd.edu/wiki/Chapter_01:_Rejecting_
> Artifacts) Edit > Select data, the button 'Select from removed channels'
> in Tools > Interpolate Electrodes is still not available. Which procedure
> should I use to make it available?
>
> Thanks!
>
> Marco
>
>
> On 2 September 2015 at 19:50, Makoto Miyakoshi <mmiyakoshi at ucsd.edu>
> wrote:
>
>> I agree with John.
>> FYI, check these links.
>>
>> http://journal.frontiersin.org/article/10.3389/fninf.2015.00016/abstract
>> http://sccn.ucsd.edu/wiki/Makoto's_preprocessing_pipeline
>>
>> Also check out clean_rawdata()
>> http://sccn.ucsd.edu/wiki/Plugin_list_process
>>
>> Makoto
>>
>> On Sat, Aug 29, 2015 at 2:03 AM, John Fredy Ochoa Gómez . <
>> jfochoaster at gmail.com> wrote:
>>
>>> I also recommend the PREP pipeline that have robust detection and
>>> interpolation algorithms for the bad channels
>>>
>>> On Sat, Aug 22, 2015 at 1:39 AM, Makoto Miyakoshi <mmiyakoshi at ucsd.edu>
>>> wrote:
>>>
>>>> Dear Marco,
>>>>
>>>> Remove the channel, run ICA, interpolate the removed channel if
>>>> necessary. Do not run ICA with the bad channel.
>>>>
>>>> > I don't know how to do step 3.
>>>>
>>>> EEGLAB has a channel interpolation function which user can do it from
>>>> GUI.
>>>>
>>>> Makoto
>>>>
>>>> On Thu, Aug 20, 2015 at 9:33 AM, Marco Buiatti <marco.buiatti at gmail.com
>>>> > wrote:
>>>>
>>>>> Dear EEGLAB Masters,
>>>>>
>>>>> I have a question concerning the interpolation of bad channels after
>>>>> ICA.
>>>>>
>>>>> When I identify a bad channel, I would like to:
>>>>> 1) run ICA ignoring that channel,
>>>>> 2) remove ICs representing artifacts,
>>>>> 3) and then reinterpolate the channel.
>>>>>
>>>>> What's the cleanest way to do that? I know that I can deselect that
>>>>> channel when I run ICA (by the way, what is plotted at that channel
>>>>> position when I plot the topography of the ICA components?), but I
>>>>> don't know how to do step 3.
>>>>>
>>>>> Ideally, I would like the interpolated channel to be in the same order
>>>>> where it was before, so that channel configuration is the same across
>>>>> subjects.
>>>>>
>>>>> I see a button 'Select from removed channels' in Tools > Interpolate
>>>>> Electrodes which sounds like solving this issue, but I have not been able
>>>>> to activate it.
>>>>>
>>>>> Thanks for your help,
>>>>>
>>>>> Marco
>>>>>
>>>>>
>>>>> --
>>>>> Marco Buiatti
>>>>>
>>>>> Neonatal Neurocognition Lab
>>>>> Center for Mind/Brain Sciences
>>>>> University of Trento,
>>>>> Corso Bettini 31, 38068 Rovereto (TN), Italy
>>>>> E-mail: marco.buiatti at unitn.it
>>>>> Phone: +39 0464-808178
>>>>>
>>>>> ***********************************************
>>>>>
>>>>> _______________________________________________
>>>>> Eeglablist page: http://sccn.ucsd.edu/eeglab/eeglabmail.html
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>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> Makoto Miyakoshi
>>>> Swartz Center for Computational Neuroscience
>>>> Institute for Neural Computation, University of California San Diego
>>>>
>>>> _______________________________________________
>>>> Eeglablist page: http://sccn.ucsd.edu/eeglab/eeglabmail.html
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>>>
>>>
>>>
>>> --
>>> John Ochoa
>>> Docente de Bioingeniería
>>> Universidad de Antioquia
>>>
>>
>>
>>
>> --
>> Makoto Miyakoshi
>> Swartz Center for Computational Neuroscience
>> Institute for Neural Computation, University of California San Diego
>>
>
>
>
> --
> Marco Buiatti
>
> Neonatal Neurocognition Lab
> Center for Mind/Brain Sciences
> University of Trento,
> Piazza della Manifattura 1, 38068 Rovereto (TN), Italy
> E-mail: marco.buiatti at unitn.it
> Phone: +39 0464-808178
> https://sites.google.com/a/unitn.it/marcobuiatti/
>
> ***********************************************
>



-- 
Makoto Miyakoshi
Swartz Center for Computational Neuroscience
Institute for Neural Computation, University of California San Diego
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