Dear all, I am currently facing issues with the plotting of iEEG electrodes on a patient MNE-Python version: 0.24.0 operating system: linux I am attempting to achieve three different things in my pipeline. I want first to create a montage for a subject with the electrodes localization. I then ne…

Dear all, I have figured it out for my specific purpose. My apologies Alex Rockhill, after trying many different things, it turns out your initial answers already contained all the relevant information. I was misunderstanding the different coordinates system. Just in case anyone has a similar que…

Tagging @adam2392 and @alexrockhill , who both work with iEEG data

Hi Alex, your pipeline looks good to me, the trans aspect is a bit confusing but there is also somewhat of a good reason behind it. MNE stores all data in the “head” coordinate frame with the origin between the right and left auricular points and y heading toward the nasion. This is a very reasonabl…

Ah I reread your code and if they are in other space in BIDS, hopefully they are in scanner RAS which is the coordinate frame “ras” in which case you need the RAS to surface RAS which freesurfer uses which can be obtained from the T1 import numpy as np import nibabel as nib T1 = nib.load('/path/to/…

Dear all, Thanks a lot for the feedback, this is very helpful. I have been looking closer at the mne tutorial. I was looking at outdated version, the newer ones are much clearer, thanks a lot for the tip. I have managed to plot my electrodes on the subject brain surface by first using the add_estim…

Hi, so you plot electrodes with MNI coordinates using specific subject’s brain?

Hi Barry, Not quite, that depends on how I set up my scripts. I have added both options here to show everything, but that might be a bit nontransparent. As an output of my electrode localization, I have the coordinates both in T1 space and in common average space (MNI). When I only look at single …

Hi, T1 means “mri” coordinnate frame with ACPC alignment, do I understand that right?

Getting iEEG montage volume label and plotting electrodes on subject pial surface

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Getting iEEG montage volume label and plotting electrodes on subject pial surface

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