[Mne_analysis] maxfilter for head movement compensation only

[Evgenii Kalenkovich]

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Thank you for the reply dear Marijn!

So, the compensation stage should be done after bad channels are
removed/interpolated - got it!

Do you think the bad channels would affect the position extraction though?

On Sun, May 5, 2019 at 2:39 PM Marijn van Vliet <w.m.vanvliet at gmail.com>
wrote:

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>
> Hi Evgenii,
>
> you’ll find that compensating head movement will spread the noise from bad
> channels to other channels. Best to be bad channel rejection *before* head
> movement compensation.
>
> best,
> Marijn.
>
> > On 5 May 2019, at 11:17, Evgenii Kalenkovich <e.kalenkovich at gmail.com>
> wrote:
> >
> >         External Email - Use Caution
> >
> >
> > Dear all,
> >
> > I would like to use maxfilter for head movement compensation only and
> skip the filtering bits.
> >
> > There are two parts to this as I understand: head position extraction
> and the actual compensation. I have several overlapping questions about
> both parts.
> >       • Head position extraction using Electa's MaxFilter
> >               • Is this step sensitive to noisy/flat channels if I only
> need head position?
> >               • Is it necessary/advised to use -cal and -ctc files for
> this purpose?
> >       • Head movement compensation using mne-python's maxwell_filter
> >               • Is this step sensitive to noisy/flat channels if I only
> do movement compensation?
> >               • Is it necessary/advised to use the fine calibration and
> cross-talk cancellation files for this?
> >               • What parameters should I supply to maxwell_filter to
> limit it to head movement compensation?
> > The reason I don't want the filtering done by MaxFilter/maxwell_filter
> is that I would like to avoid manually selecting bad channels. Which, in
> turn, I want to avoid to keep the analysis reproducible on new data. I
> remove bad channels/epochs at a later stage using the autoreject package.
> >
> > Thank you for any advice,
> > Evgenii
> >
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