[Neuroimaging] [PySurfer] How to use different surface meshes in PySurfer?

Rolando Masis-Obando rolandomasisobando at gmail.com
Sun May 24 19:17:21 EDT 2020

Hey Eric,

Thanks for responding! So, unfortunately, that doesn't work. It might be
because the file that works in SUMA is a gifti. Not sure though.

[image: image.png]

Do you have any other suggestions? Is there a way to create surface brains
at different inflations that's freesurfer compatible?

Thanks again!!


On Thu, May 21, 2020 at 12:21 PM Eric Larson <larson.eric.d at gmail.com>

> I'm trying to figure out a way to use alternative *fsaverage6 *surface
>> meshes in PySurfer. In other words, how can I use mesh that doesn't come by
>> default in freesurfer. I have some fsaverage6 brains at different
>> inflations in SUMA, but I would like to use them in PySurfer. Is there an
>> easy way to do this?
> If you name the meshes `fsaverage/surf/lh.whatever` and `rh.whatever`, you
> might be able to use `surf='whatever'` in PySurfer. Not sure if we sanity
> check the names, or just check to see if the files exist, but it's worth a
> shot.
>> I'm also not sure that the SUMA meshes are compatible with those of
>> PySurfer (they are giftis). If there is a way, what would you recommend?
> They need to preserve the vertex ordering, otherwise plotting will not
> work. I would first check to see if there are the same number of vertices,
> if they are, then try plotting some data on the builtin meshes, then on
> yours.
> Eric
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