[FieldTrip] FEM using Simbio

Cristiano Micheli michelic72 at gmail.com
Thu Apr 7 17:36:37 CEST 2016


Hi Rajat

My guess is that the orientations of your hexahedrons are not correct.
According to a low-level file's internal rules, elements' orientations have
to abide strict rules (not sure what exactly the contraints are in this
case though...).
I had same problems when for example the triangular boundaries used to
define the 3d hexahedral mesh were not topologically correct, to start with.
Admittedly this approach requires a lot of technical expertise.
Can I ask you what do you need a FEM model for?

Regards
Cris Micheli




On Wed, Apr 6, 2016 at 3:10 PM, Rajat Thomas <r.thomas at nin.knaw.nl> wrote:

> 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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