[Mne_analysis] interactive gui

Teon Brooks teon.brooks at gmail.com
Wed Apr 13 12:24:16 EDT 2016
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Hi Dirk,

We have a new (as of v0.10) interactive plotting for epochs that is a
method of the Epochs object. If you have made your epochs: epochs =
mne.Epochs(raw), then you can just say epochs.plot and it will provide
browser for looking at the epochs for artifact rejection.

HTH,



teon
--


Teon Brooks, PhD Candidate
NSF Fellow, Chateaubriand Fellow
Department of Psychology, New York University
Researcher | OpenBCI
Co-Chair | BraiNY, Greater NYC Chapter of Society for Neuroscience

On Wed, Apr 13, 2016 at 11:34 AM, Moorselaar, D. van <d.van.moorselaar at vu.nl
> wrote:

> Hey Teon,
>
> Thanks for your quick reply. The plotting of mne_browse_raw works fine.
> However, I should have been more clear in my question. I am looking for a
> way to quickly browse through my epoched data to check whether there are
> any remaining artifacts after automatic artifact rejection. In Matlab I was
> able to scroll to plots of EEG data to visually inspect the data and select
> epochs for rejection. Is this also possible in python via mne? I can now
> only think of the very inefficient work around to loop over all epochs with
> mne_browse_raw
>
> Thank you,
>
> Dirk
>
>
>
> On Apr 13, 2016, at 12:34 AM, Teon Brooks <teon.brooks at gmail.com> wrote:
>
> Hi Dirk,
>
> To get started with mne using the python tools, you can follow along with
> this example
> <http://martinos.org/mne/stable/auto_examples/io/plot_read_and_write_raw_data.html#sphx-glr-auto-examples-io-plot-read-and-write-raw-data-py> and
> our intro
> <http://martinos.org/mne/stable/auto_tutorials/plot_introduction.html>.
> We have a python implementation of mne_browse_raw with core overlapping
> features. To browse your data, you need to read it in using the appropriate
> function here <http://martinos.org/mne/stable/manual/io.html> given your
> data type (raw = mne.io.read_raw_xxx). Then you can plot and inspect your
> data using raw.plot().
>
> Feel free to browse our website <http://martinos.org/mne/>. Let us know
> if you have any questions or if you find a particular section confusing.
>
> HTH,
>
>
>
> teon
> --
>
>
> Teon Brooks, PhD Candidate
> NSF Fellow, Chateaubriand Fellow
> Department of Psychology, New York University
> Researcher | OpenBCI
> Co-Chair | BraiNY, Greater NYC Chapter of Society for Neuroscience
>
> On Tue, Apr 12, 2016 at 7:48 PM, Moorselaar, D. van <
> d.van.moorselaar at vu.nl> wrote:
>
>> Hello,
>>
>> Sorry to bother you with this probably very stupid question. I have been
>> working with mne software for about a year now. Until now I have always
>> done data inspection via EEGLab in matlab and run all analysis via mne
>> based python scripts. However, I would like to switch my entire pipeline to
>> mne/python, but I seem to be unable to launch the user interface of
>> me_browse_raw. Could anyone please tell me what I need to do to launch this
>> interface.
>>
>> Thank you very much,
>>
>> Dirk
>>
>>
>>
>>
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