[Mne_analysis] mne_browse_raw

[pascarel at dima.unige.it]

Ciao Denis,

thks a lot, also for the useful links.
I know quite well the webpage but I miss ever something :)

In my experience, the dict(mag=4e-12, grad=4000e-13)
works well, it is the first time I met this problem.
I'll look to this tutorial.

Thks again!
best
Annalisa

Denis-Alexander Engemann <denis.engemann at gmail.com> ha scritto:

> I see where you want to go. In my experience the values I recommended to
> you work pretty well on many data. Just take a look at average EOG/ECG
> artefact scales and then add some room above to make sure you don't reject
> data because of biological artifacts you intend to regress out using ICA.
> Have a look at the last section here:
> http://martinos.org/mne/stable/auto_tutorials/plot_artifacts_detection.html
>
> Hope this helps,
> Denis
>
> On Wed, Nov 30, 2016 at 4:25 PM <pascarel at dima.unige.it> wrote:
>
>> Hi Denis,
>>
>> thks for your fast response!
>>
>>
>> >> RuntimeError: No clean segment found. Please consider updating your
>> > rejection thresholds
>> >
>> > It means that your reject parameters are too strict. You want to make
>> sure
>> > that data segments contaminated by strong environmental magnetic fields
>> are
>> > ignored, but you don't want to reject ECG or EOG since these need to be
>> > kept in order to find corresponding components.
>> >
>>
>> Thks, I supposed it was related to the reject dict and
>> I wonder if I could get this thresholds by inspecting the data
>> but with raw.plot() I didn't see the MEG field amplitudes o.O
>>
>> I attached what I see by using raw.plot().
>>
>> >> Try dict(mag=5e-12, grad=5000e-13)
>>
>> I'll try with this dict!
>>
>> Thks again!
>> best
>> Annalisa
>>
>>
>>
>> > What is wrong with raw.plot()?
>> > It should give you exactly what you want.
>> >
>> > I hope this helps,
>> > Denis
>> >
>> > On Tue, Nov 29, 2016 at 11:56 PM <pascarel at dima.unige.it> wrote:
>> >
>> >> Dear Mne users,
>> >>
>> >> is there in MNE python a way to interactively plot
>> >> the raw data as in mne_browse_raw?
>> >>
>> >> If I use raw.plot() is there a way to visualize the
>> >> intensity of the magnetic field?
>> >>
>> >> I'm applying ICA to a raw dataset and I'm using this
>> >> reject dict
>> >> reject = dict(mag=4e-12, grad=4000e-13)
>> >>
>> >> but ICA doesn't perform and I get this message
>> >>
>> >> RuntimeError: No clean segment found. Please consider updating your
>> >> rejection thresholds
>> >>
>> >> since I'm asking how inspect the raw data by MNE python to see how to
>> set
>> >> the reject thresholds.
>> >>
>> >> Thks!
>> >> best
>> >> Annalisa
>> >>
>> >>
>> >> --
>> >> Dott. Annalisa Pascarella
>> >> Istituto per le Applicazioni del Calcolo "M. Picone"
>> >> Consiglio Nazionale delle Ricerche
>> >> Via dei Taurini 19, 00185 Roma (Italy)
>> >> Ph.:+39-0649270946 <+39%2006%204927%200946> <+39%2006%204927%200946>;
>> Fax:+39-064404306 <+39%2006%20440%204306>
>> >> <+39%2006%20440%204306>
>> >>
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>> Dott. Annalisa Pascarella
>> Istituto per le Applicazioni del Calcolo "M. Picone"
>> Consiglio Nazionale delle Ricerche
>> Via dei Taurini 19, 00185 Roma (Italy)
>> Ph.:+39-0649270946 <+39%2006%204927%200946>; Fax:+39-064404306
>> <+39%2006%20440%204306>
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-- 
Dott. Annalisa Pascarella
Istituto per le Applicazioni del Calcolo "M. Picone"
Consiglio Nazionale delle Ricerche
Via dei Taurini 19, 00185 Roma (Italy)
Ph.:+39-0649270946; Fax:+39-064404306