Hi, I have SEEG electrode in MNI space and I want to plot it along with the fsaverage brain. Simple task. Then I found this tutorial: Working with sEEG data. Just want I want.
However, I found this tutorial very confusing. According to this sentence at the begining of the article "Note that our sample sEEG electrodes are already assumed to be in MNI space. ", so SEEG electrodes are in MNI space. And according to this comments in the second code block “paths to mne datasets - sample sEEG and FreeSurfer’s fsaverage subject which is in MNI space”, I conclude that fsaverage is also in MNI.
First, I don’t think fsaverage is in MNI after I have done some internet searching. Second, If the author is right, both sEEG and fsaverage are in MNI, there will be no need for the transformation at all.
Then, according to this comment sentence in the 4th code block: “first we need a head to mri transform since the data is stored in “head” coordinates”, it seems the sEEG electrodes are in the head coordinates. I am confused. Is the sEEG in MNI or head space?
Appreciate any clarification. I don’t think it is too much complext itself, just trying to bring everything into the same space for plotting. But this tutorial is very conflicting and confusing. I have wasetd a whole morning trying to follow the logic in the article, if any.
Now, for my task, as mentioned above, since my SEEG is in MNI and fsaverage is in MRI, I need to transform fsaverage to MNI before the plotting. Correct me if I am wrong.
Best