[FieldTrip] FEM using Simbio

Carsten Wolters carsten.wolters at uni-muenster.de
Wed Apr 6 16:03:09 CEST 2016


Dear Rajat,

the element-node cards of SimBio-NeuroFEM need to follow certain 
orientations (see www.simbio.de).

If you do not want to struggle with meshing/ordering, use the 
SimBio-VGRID mesher
http://vgrid.simbio.de/
that follows the required ordering of nodes. You might use this mesher 
to produce 1mm geometry-adapted FEM meshes
that show good overall performance, see
http://www.sci.utah.edu/~wolters/PaperWolters/2007/WoltersEtAl_IEEE_TBME_2007.pdf
and
http://www.sci.utah.edu/~wolters/PaperWolters/2016/WagnerLuckaVorwerkHerrmannNolteBurgerWolters_NeuroImage_2016.pdf
(latter was just accepted by NeuroImage).

Best regards
       Carsten

Am 06.04.2016 um 15:10 schrieb Rajat Thomas:
>
> Dear all,
>
>
> Has anyone used the FEM approach to Headmodels using Simbio recently?
>
>
> If so, I get this error:
>
> "Elements have wrong orientation or are degenerated"
>
> Any ideas?
>
> cfg        = [];
>
> cfg.method ='simbio';
>
> cfg.conductivity = [0.33 0.14 1.79 0.01 0.43]; % order follows 
> mesh.tissyelabel
>
> vol        = ft_prepare_headmodel(cfg, mesh);
>
>
> And;
>
> ‚Äč
>
> disp(mesh)
>             hex: [545883x8 double]
>             pnt: [569722x3 double]
>          labels: [545883x1 double]
>          tissue: [545883x1 double]
>     tissuelabel: {'csf'  'gray'  'scalp'  'skull'  'white'}
>            unit: 'mm'
>             cfg: [1x1 struct]
>
>
> Any help would be highly appreciated.
>
> Rajat
>
>
>
>
>
>
> Rajat Mani Thomas
> Social Brain Lab
> Netherlands Institute for Neuroscience
> Amsterdam
>
>
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> fieldtrip at donders.ru.nl
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