[Eeglablist] Question about Cleanline

[Tim Mullen]

Actually, that is not correct.

Cleanline uses multitaper regression, with Thompson's F-statistic for
determining the probability of sinusoidal artifact at a given frequency.
There is no "Welch FFT" nor any need to high pass filter the data (this
would have no effect on Welch's method either).

Please see the documentation and references I have provided for Cleanline,
in the toolbox Readme file on NITRC, paying attention to the "Tips on
Running Cleanline" section:
https://www.nitrc.org/projects/cleanline/

Eric, you may try running Cleanline iteratively on the data, gradually
increasing the significance threshold (LineAlpha). You may also try
different window sizes, as suggested in the tips. Other tips there may also
apply. If you have multiple epochs, ensure your window size and step size
equal (or divide) the epoch length.

You may also consult our PREP paper/toolbox, which wraps around Cleanline
and local detrending tools I have previously discussed on this list, as
well as other artifact rejection tools developed by Christian Kothe.

Best,
Tim Mullen
On Apr 5, 2016 2:09 PM, "Makoto Miyakoshi" <mmiyakoshi at ucsd.edu> wrote:

> Dear Eric,
>
> First of all, did you apply it on the high-pass filtered data? CleanLine
> uses EEGLAB's Welch's method for FFT (if I remember correctly) to evaluate
> the spectrum, so the data needs to be high-pass filtered. See Nima
> Bigdely-Shamlo's PREP pipeline paper for detail.
>
> Did you average reference the data? It may help, especially if your data
> are not re-referenced at all (like Biosemi's data).
>
> Another thing is that you can expect a small improvement by doing this
>
>  'SlidingWinLength',4,'SlidingWinStep',4
>
> If these does not work, I recommend you band-pass filter your data 45-55Hz
> to see stationarity of your 'line noise'-- is it really it??
>
> Makoto
>
>
> On Fri, Mar 4, 2016 at 2:14 AM, Eric HG <erichg2013 at gmail.com> wrote:
>
>> Hi everybody,
>>
>> I've been trying to apply Cleanline instead of a notch filter but there
>> seems to be a problem with some of the subjects. Cleanline doesn't seem to
>> remove all the line noise (at 50 Hz) (see picture). Before I use cleanline
>> I use the function pop_firwsord to high- and low-pass the EEG.
>>
>> I use cleanline with the following settings:
>>
>> [EEG, Sorig, Sclean, f, amps, freqs, g] = pop_cleanline(EEG, 'Bandwidth'
>> ,2,'ChanCompIndices',[1:EEG.nbchan], ...
>>
>>                           'SignalType','Channels','ComputeSpectralPower',true,
>> ...
>>
>>                           'LineFrequencies',[50] ,'NormalizeSpectrum',false,
>> ...
>>
>>                           'LineAlpha',0.01,'PaddingFactor',2,
>> 'PlotFigures',false,          ...
>>
>>                           'ScanForLines',true,'SmoothingFactor',100,
>> 'VerboseOutput',1,    ...
>>
>>                            'SlidingWinLength',4,'SlidingWinStep',2);
>> Does anyone know what might need to be changed to fix this?
>>
>> Best,
>>
>> Eric
>>
>>
>> [image: Inline image 1]
>>
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>
>
>
> --
> Makoto Miyakoshi
> Swartz Center for Computational Neuroscience
> Institute for Neural Computation, University of California San Diego
>
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