[Mne_analysis] Setting the Marker channel

[Jaakko Leppakangas]

I was able to reproduce the plot with version 0.13. I'm not sure what's the
cause of it, but in v. 0.14 it looks better. Can you try updating mne to
the latest version?

-Jaakko

On Sun, Jul 9, 2017 at 2:22 PM, Senaka Amarakeerthi <senakahks at gmail.com>
wrote:

> Hi,
>
> I am migrating from EEGLAB and tried to apply baseline corrections and
> filters, unfortunately, those attempts ended up with another set of errors.
> Highly appreciating somebody's support since I am exhausted.
>
> Sample file URL:
> https://www.dropbox.com/s/vwvy4duwkahysfk/ChinthakaDahnushka.edf?dl=0
>
> The code so far I used:
>
> import mne
> import numpy as np
> import matplotlib.pyplot as plt
>
>
> raw = mne.io.read_raw_edf('ChinthakaDahnushka.edf', preload=True)
> raw = raw.drop_channels(['COUNTER', 'INTERPOLATED','RAW_CQ','GYROX','GYROY', 'SYNC', 'TIME_STAMP_s', 'TIME_STAMP_ms', 'CQ_AF3', 'CQ_F7', 'CQ_F3', 'CQ_FC5', 'CQ_T7', 'CQ_P7', 'CQ_O1', 'CQ_O2', 'CQ_P8', 'CQ_T8', 'CQ_FC6', 'CQ_F4', 'CQ_F8', 'CQ_AF4', 'CQ_CMS', 'STI 014'])
>
> data = raw[:, :][0]
>
> data[14] *= 1000000
>
> raw = mne.io.RawArray(data, raw.info)
>
> events = mne.find_events(raw, stim_channel='MARKER')
>
>
> print('Found %s events, first five:' % len(events))
> print(events[:5])
>
>
> event_id = {'two': 2}
>
> epochs = mne.Epochs(raw, events, event_id=event_id, tmin=-0.2, tmax=1.5)
>
>
> epochs_data = epochs['two'].get_data()
>
>
> print(epochs_data.shape)
>
>
> epochs.plot(block=True)
>
>
> This is the plot I ended up with
>
> https://ibb.co/ccKXvF
>
> Thanks,
>
> Senaka
>
>
>
> <https://mailtrack.io/> Sent with Mailtrack
> <https://mailtrack.io/install?source=signature&lang=en&referral=senakahks@gmail.com&idSignature=22>
>
> On Sun, Jul 9, 2017 at 1:33 PM, Alexandre Gramfort <
> alexandre.gramfort at telecom-paristech.fr> wrote:
>
>> hi,
>>
>> did you baseline correct your Epochs or high pass filter the raw data?
>> if not please do.
>>
>> you may have a big offset in the values.
>>
>> HTH,
>> Alex
>>
>> On Sat, Jul 8, 2017 at 4:38 PM, Senaka Amarakeerthi <senakahks at gmail.com>
>> wrote:
>>
>>> Hi Alex,
>>>
>>> Thank you for your time. You can check screenshots of the graphs below,
>>> which were not available in the last post.
>>>
>>>
>>> raw.plot(block=True)
>>> https://ibb.co/n6GeaF
>>>
>>> epochs.plot(block=True)
>>>
>>> https://ibb.co/ccKXvF
>>>
>>>
>>> So, I guess this is not a problem with an amplitude of the signal. Am I
>>> correct?
>>>
>>> Thanks,
>>>
>>> Senaka
>>>
>>>
>>> <https://mailtrack.io/> Sent with Mailtrack
>>> <https://mailtrack.io/install?source=signature&lang=en&referral=senakahks@gmail.com&idSignature=22>
>>>
>>> On Sat, Jul 8, 2017 at 7:49 PM, Alexandre Gramfort <
>>> alexandre.gramfort at telecom-paristech.fr> wrote:
>>>
>>>> I don't see any problem. Make sure your data are in Volts not
>>>> micro-Volts.
>>>>
>>>> Best,
>>>> Alex
>>>>
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