[Mne_analysis] coordinate spaces

[Eric Larson]

IIRC should both be in MRI coordinate system (FIFFV_COORD_MRI). I think
FreeSurfer surfaces are in mm instead of m, though, so watch out for that.
And the `stc.vertices[0]` are left and `stc.vertices[1]` are right indices
into the high-resolution mesh (that you'd get from read_surface) for the
subject of interest, yes. You can (hopefully) verify all these things by
loading the source space used for the given subject and making sure things
match up.

If you do some verification like this, it would make a great starting
MNE-Python tutorial on surface-based source spaces.

Eric


On Wed, Oct 26, 2016 at 5:01 PM, Dan Howarth <d.c.howarth at gmail.com> wrote:

> Hello,
>
> Is the coordinate space the same for there two sets of verticies?
>
> (1) The 'rr' that is returned by read_surface
> https://github.com/mne-tools/mne-python/blob/
> 24ca938c616b3ef5b4f57a9ffbcf9f35a9dfdf56/mne/surface.py#L431
>
> and
>
> (2) the 'vertices' attribute of a SourceEstimate object created with
> apply_inverse?
>
> Assuming of course that in both cases they are from the same subject.
>
> Are the 'vertices' that are part of a SourceEstimate indices into the 'rr'
> array that is returned by read_surface?
>
> Thanks,
> Dan Howarth
>
>
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