[Mne_analysis] vertex numbers in source space files

[Alexandre Gramfort]

hi Björn,

if you get:

isequal(find(sspace(1).inuse),sspace(1).vertno)
ans = 1

it's that vertno is indexed starting at 1 as find returns matlab indices.

HTH
Alex

On Fri, Aug 2, 2013 at 2:14 PM, Björn Herrmann <bherrmann at cbs.mpg.de> wrote:
> dear mne users,
>
> i am using the MNE toolbox to obtain source spaces. in particular, i have a question regarding the vertex numbers in matlab.
> i am reading the source space
>
> sspace = mne_read_source_spaces(['fsurf/' subj{s} '/bem/' subj{s} '-ico-5-src.fif']);
> sspace(1)
> ans =
>               id: 101
>               np: 136746
>             ntri: 273488
>      coord_frame: 5
>               rr: [136746x3 double]
>               nn: [136746x3 double]
>             tris: [273488x3 int32]
>             nuse: 10242
>            inuse: [1x136746 int32]
>           vertno: [1x10242 int32]
>         nuse_tri: 20480
>         use_tris: [20480x3 int32]
>          nearest: []
>     nearest_dist: []
>            pinfo: []
>             dist: []
>       dist_limit: []
>
> and I calculated an inverse solution for the reduced number of vertices (n = 10242). before morphing this solution to the full 136746 vertices I do the following
>
> Vector = zeros(size(sspace(1).rr,1),1);
> Vector(sspace(1).vertno+1) = J;
>
> however, i am unsure whether it is "sspace(1).vertno" or "sspace(1).vertno+1". I had the feeling that the vertex numbers start at 0 and thus adding a 1 is correct. the vector sspace(1).inuse however points towards not adding the 1, since
>
> isequal(find(sspace(1).inuse),sspace(1).vertno)
> ans =
>      1
>
> could one of you help me regarding which one is right? i was favoring adding 1, because the morphed solution (136746 vertices) and the solution plotted for the reduced number of vertices (10242) looked more alike when i add 1 to sspace(1).vertno
>
> thanks in advance,
> björn
>
>
>
> ------
> Björn Herrmann
>
> Auditory Cognition Group
> Max Planck Institute for Human Cognitive and Brain Sciences
> Stephanstrasse 1a, 04103 Leipzig, Germany
>
> phone: ++49 (0)341 9940 2606
> email: bherrmann at cbs.mpg.de
>
>
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