Subcortical divide parcellation

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Dear mne experts,

I would like to do subcortical divide parcellation, such as the
hippocampus.

By my understanding in freesurfer, the cortical parcellation can be
saved as vertices but subcorticalparcellation is only saved as volumes.

I found your code mne.label.py is very useful for the cortical
sub-parcellation. Thank you for your nice work.

My question is: do you have any suggestion for the sub-cortical split,
such as hippocampus?

I am coding for it now. It would be great if you already have one tested.

Thank you so much,

Huifang

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hi Huifang,

there is no such tool in mne code but maybe someone can help.

Sorry I cannot help you more.

Alex

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Dear Huifang,
We are testing scripts to load cortical meshes and subcortical volumes from Brainvisa (MarsAtlas) into mne-python. The subcortical volumes are those generated by freesurfer.
The code is not ready yet, but we can share some preliminary scripts if you wish.
Cheers,
Andrea

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Hi Alex,

Thank you so much for your leading me here.

In fact, based on your code, I managed to do it for the subcortical sub parcellation now. I am testing/verifying it, if it is correct, I would let you know or share with the community. ?

Have a good day,

Best,

Huifang

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Dear Andrea,

Happy new year first.

Thank you so much. You always have the cool stuff and always so kind. I just managed to do one. When you have time, we could sit down to discuss and share.

I am testing it using 10 subjects and verifying with clinicians. If it doesn't work well, I may run to you in a rush.

Thank you very much again. All the best wishes to you and your family.

With all the best wishes,

Huifang