Visual artifact rejection

✉️ Mailing List Archive (read-only)
1

Hello MNEers,

Does mne_browse_raw have a utility for manually rejecting epochs or time
periods (as opposed to using automated artifact rejection parameters in an
averaging or covariance description file)?

Thank you,
Steve Politzer-Ahles

2

Hi Steve,

not to my knowledge.

The artifact you see won't be captured by the standard epoch rejection ?

Can you describe how your artifact looks like? It could be doable with python
by overloading the rejection function in the Epochs object.

Alex

3

Hi Alex,

Thanks for your response. I'm actually not thinking of any particular
artifact, I was just asking for curiosity's sake; in my past studies I have
always done artifact rejection manually rather than via an algorithm, and I
am now interested in moving my data pipeline to MNE but doing artifact
rejection and other preprocessing in a way that is maximally similar to
what I was doing before. I noticed that the FieldTrip toolbox has a
function for exporting its data to MNE, so it looks like my best option
might be to do the manual artifact rejection in FieldTrip and then import
to MNE for the rest of the preprocessing.

Thanks,
Steve

4

hi steve,

Thanks for your response. I'm actually not thinking of any particular
artifact, I was just asking for curiosity's sake; in my past studies I have
always done artifact rejection manually rather than via an algorithm, and I
am now interested in moving my data pipeline to MNE but doing artifact
rejection and other preprocessing in a way that is maximally similar to what
I was doing before.

an option I see it to mark events manually in mne_browse_raw and then use a
bit of code to flatten the channels during the bad periods before passing it
to MNE that can reject based on flat channels.

I noticed that the FieldTrip toolbox has a function for
exporting its data to MNE, so it looks like my best option might be to do
the manual artifact rejection in FieldTrip and then import to MNE for the
rest of the preprocessing.

that's option but be sure that fieldtrip does not loose any important info
along the way. I've never tried that but maybe someone here can share his
experience.

Alex