[Eeglablist] Regarding Pre-processing pipeline

Wed Jul 5 11:31:48 PDT 2017

Dear Narendra,

PREP does NOT apply high-pass filter. It applies it only for the purpose of
CleanLine. The final output from PREP is NOT high-pass filtered (if I
understand and remember correctly).

Makoto

On Wed, Jul 5, 2017 at 3:56 AM, Narendra Kumar <
narendra.linguistics at gmail.com> wrote:

> Dear Makoto and EEGLABlist users,
>
> I am in a deep confusion in preprocessing of my EEG/ERP data focussed on
> N400/P600 component. Kindly clarify my following issues:
>
>
> As suggested in your pipeline,  at what stage of processing I need to
> apply ICA weight matrix and sphereing matrix with 1-Hz high-passed data to
> 0.1-Hz high-passed data. Actually, I want the data to be filtered with
> 0.1-30Hz followed by removing bad channels using PREP pipeline. On the
> other hand PREP pipeline suggest the data should be filtered with 1Hz
> High-pass.
>
>
> In such case, kindly
> suggest me preprocessing pipeline.
>
>
> Regards,
> Narendra Kumar
>
> On Tue, Jul 4, 2017 at 9:47 AM, Narendra Kumar <
> narendra.linguistics at gmail.com> wrote:
>
>> Dear Makoto,
>>
>> I have just realised one blunder done by me. I promised you that I won't
>> disclose your message to anyone else but by mistake I cc'ed it to eeglab
>> forum. I am extremely sorry for this.
>>
>> Thanks and regards,
>>
>> Narendra Kumar
>>
>> On Tue, Jul 4, 2017 at 8:26 AM, Narendra Kumar <
>> narendra.linguistics at gmail.com> wrote:
>>
>>> Dear Makoto,
>>>
>>> Thanks a lot for your response.
>>>
>>> Regards,
>>> Narendra
>>>
>>> On Tue, Jul 4, 2017 at 7:01 AM, Makoto Miyakoshi <mmiyakoshi at ucsd.edu>
>>> wrote:
>>>
>>>> Dear Kumar,
>>>>
>>>> > But I want  a to know one thing if I use your preprocessing pipeline,
>>>>  I can I cite the webpage ?
>>>>
>>>> I don't think citing a website is valid in scientific communication.
>>>> Check the journal's policy.
>>>>
>>>> > Further, following your preprocessing pipeline, when I run *Tool >
>>>> Interpolate electrodes, *it gives the following warning message,
>>>>
>>>>
>>>> Warning: do not interpolate channels before running ICA
>>>>
>>>>
>>>> Is it okay to proceed further ignoring this message ?
>>>>
>>>> ICA can 'usually' tell the right rank of the data, so I would say it's
>>>> ok. If you have a concern, use 'pca', 16 if your number of channels BEFORE
>>>> INTERPOLATION is 16 to explicitly tell ICA to use rank of 16.
>>>>
>>>> Makoto
>>>>
>>>> On Mon, Jul 3, 2017 at 6:26 PM, Narendra Kumar <
>>>> narendra.linguistics at gmail.com> wrote:
>>>>
>>>>> Dear Makoto,
>>>>>
>>>>> Thanks for the reply. I won't disclose it anywhere. But I want  a to
>>>>> know one thing if I use your preprocessing pipeline,  I can I cite the
>>>>> webpage ?
>>>>>
>>>>> Further, following your preprocessing pipeline, when I run *Tool >
>>>>> Interpolate electrodes, *it gives the following warning message,
>>>>>
>>>>>
>>>>> Warning: do not interpolate channels before running ICA
>>>>>
>>>>>
>>>>> Is it okay to proceed further ignoring this message ?
>>>>>
>>>>> Kindly reply.
>>>>>
>>>>> Thanks,
>>>>> Narendra
>>>>>
>>>>>
>>>>> On Mon, Jul 3, 2017 at 12:12 PM, narendra karna <
>>>>> narendra.kumar at iitrpr.ac.in> wrote:
>>>>>
>>>>>> Dear Makoto,
>>>>>>
>>>>>> I am a basic level learner of EEGLAB toolbox. I can only do GUI based
>>>>>> steps. In your preprocessing pipeline, you mentioned
>>>>>>
>>>>>> There are reports that 1-Hz high-pass filter attenuates (or even
>>>>>> 'distorts') low-frequency, so-called 'late slow waves' of event-related
>>>>>> potential family, such as N400 or P600 (these names are paradigm dependent,
>>>>>> of course). To avoid this problem, one can calculate ICA weight matrix and
>>>>>> sphereing matrix with 1-Hz high-passed data, then apply it to 0.1-Hz
>>>>>> high-passed data. This ICA matrices transfer can be done through EEGLAB GUI
>>>>>> 'Edit' -> 'Dataset info'.
>>>>>>
>>>>>> Here, can you explain how to perform this step wise (in a pipeline
>>>>>> way) ? I'll be thankful to you for this.
>>>>>>
>>>>>> Thanks !
>>>>>>
>>>>>> Regards,
>>>>>> Narendra
>>>>>> Research Scholar
>>>>>> Department of Humanities and Social Sciences
>>>>>> Indian Institute of Technology Ropar
>>>>>> Punjab, India - 140001
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>>
>>>>> Research Scholar
>>>>> Department of Humanities and Social Sciences
>>>>> Indian Institute of Technology Ropar
>>>>> Punjab, India - 140001
>>>>>
>>>>>
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> Makoto Miyakoshi
>>>> Swartz Center for Computational Neuroscience
>>>> Institute for Neural Computation, University of California San Diego
>>>>
>>>
>>>
>>>
>>> --
>>>
>>> Research Scholar
>>> Department of Humanities and Social Sciences
>>> Indian Institute of Technology Ropar
>>> Punjab, India - 140001
>>>
>>>
>>>
>>
>>
>> --
>>
>> Research Scholar
>> Department of Humanities and Social Sciences
>> Indian Institute of Technology Ropar
>> Punjab, India - 140001
>> Contact No.:- +91-8968945650 <+91%2089689%2045650>
>> Homepage:- *https://www.sites.google.com/site/narendraiitrpr
>> <https://www.sites.google.com/site/narendraiitrpr/>/*
>> Social Networking Sites: - Facebook
>> <https://www.facebook.com/narendra.karna.7>; Researchgate
>> <https://www.researchgate.net/profile/Narendra_Kumar22/>
>>
>>
>>
>>
>
>
> --
>
> Research Scholar
> Department of Humanities and Social Sciences
> Indian Institute of Technology Ropar
> Punjab, India - 140001
> Contact No.:- +91-8968945650 <+91%2089689%2045650>
> Homepage:- *https://www.sites.google.com/site/narendraiitrpr
> <https://www.sites.google.com/site/narendraiitrpr/>/*
> Social Networking Sites: - Facebook
> <https://www.facebook.com/narendra.karna.7>; Researchgate
> <https://www.researchgate.net/profile/Narendra_Kumar22/>
>
>
>
>

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