source reconstructed time courses

💬 Support & Discussions
1

Dear MNE community,

I am using mne.extract_label_time_course() to extract source time series from simulated data. However, the time courses that I get are all absolute valued i.e. the negative part of the time courses are flipped to positive values. I’ve tried to figure out if there is some parameter in mne.extract_label_time_course() that causes this but I have failed. I am new to MEG data and MNE-python. I therefor turn to you and hope that perhaps someone will know. Many Thanks in advance!

Kind regards
Marika

2

look at pick_ori parameter in https://mne.tools/stable/generated/mne.minimum_norm.apply_inverse.html

Alex

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3

Thank you so much for your help Alex, really appreciate it!

If anyone is reading this haveing the same problem: Setting pick_ori= “normal” in mne.minimum_norm.apply_inverse() solves the problem.

Kind regards
Marika

4

Hi Marika,

Its difficult to understand the issues that you are facing. Could you share some code snippet instead?

What mode are you using in mne.extract_label_time_course()?
What did you use as pick_ori for your source data?

cheers,
Dip

5

Dear Dip,

Sorry if I wasn’t clear in my previous reply, my problem was solved by setting the pick_ori parameter as suggested by Alex. But thank you anyway for engaging in the question!

Kind regards
Marika

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