[Mne_analysis] Identifying adjacent sources
gramfort at nmr.mgh.harvard.edu
Sun May 12 09:22:38 EDT 2013
if you use an ico or oct source space you have the triangles for the source
space from which you can extract the adjacency matrix.
for how to access the use_tris in Python (should be the same in matlab)
and the mesh_edges function:
On Sat, May 11, 2013 at 12:09 PM, A.C.G. Thwaites <acgt2 at cam.ac.uk> wrote:
> Hi Steve,
> I have a function for this, it accepts a .surf mesh, a center vertex
> number, and a 'distance' d and it returns a list of vertices d vertices
> away from the centre vertex (so distance 1 would return a list of every
> vertex adjacent to the centre vertex, distance 2 would be the vertices that
> form a ring around the adjacent vertices, etc).
> I can't remember if it does the full mesh or allows you to search through a
> downsampled mesh (ie just the sources you have estimated).
> I'll check and send it to the list on monday.
> On May 11 2013, Stephen Politzer-Ahles wrote:
>>Is there a straighforward method to figure out, for any cortical source or
>>vertex, what the adjacent cortical sources/vertices are?
>>More specifically, I have extracted .amp timecourse files for each
>>participant and condition that look something like this:
>> 100779 9.76119e-13 9.8006e-13 1.01097e-12 1.0584e-12
>> 102810 5.77402e-13 4.74985e-13 6.13183e-13 8.53066e-13
>> 103338 7.69642e-13 1.13359e-12 1.48948e-12 1.78157e-12
>> 103374 6.44688e-13 8.72736e-13 1.09166e-12 1.24282e-12
>>where the first number in each row is the vertex that timecourse comes from
>>(and the following columns are the current estimates at each timepoint).
>>I'm interested in doing a permutation-based spatiotemporal clustering test,
>>so what I'd like to be able to do is, for each of those vertices, to get a
>>list of which sources are adjacent to it. (Not necessarily which vertices
>>are adjacent to it, since my understanding is that the cortical sources
>>represent just a subset of the vertices present in the original
>>tesselation.) I assume that after triangulation there must be some record
>>of this, or some way to find it out, but I can't figure out where to find
>>it. By the way, my structural images were segmented in Freesurfer, so the
>>triangulations are in .surf files rather than .tri files.
>>Any advice is greatly appreciated! Thank you,
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