[FieldTrip] Headmodel with NeuroScan meshes

[Alexandre Gramfort]

Here is a tiny function that should help

https://github.com/agramfort/matlab_mesh_toolbox/blob/master/load_tri.m

Alex

On Tue, Jun 12, 2012 at 11:08 AM, IMALI THANUJA HETTIARACHCHI <
ith at deakin.edu.au> wrote:

>  Deal Alex,
>
>
>
> Thank you so much for the quick reply, I managed to do what you suggested
> then got stuck at loading the '_sm_flip.tri' files to MATLAB.
>
>
>
> This may be a very naive question, but hope you can give me some help on
> this please.
>
>
>
> Many thanks
>
>
>
> Kind regards
>
> Imali
>  ------------------------------
> *From:* alexandre.gramfort at gmail.com [alexandre.gramfort at gmail.com] on
> behalf of Alexandre Gramfort [alexandre.gramfort at inria.fr]
> *Sent:* Tuesday, 12 June 2012 4:10 PM
> *To:* FieldTrip discussion list; IMALI THANUJA HETTIARACHCHI
> *Subject:* Re: [FieldTrip] Headmodel with NeuroScan meshes
>
>  hi Imali,
>
>  your meshes had indeed tiny problems. To fixed it I just smoothed a tiny
> bit the meshes.
>
>  In matlab:
>
>  >> load innerSkull
> >> om_save_tri('innerSkull.tri', curryloc', currytri');
>
>  then :
>
>  $om_mesh_smooth -i innerSkull.tri -o innerSkull_sm.tri -n 2
> $om_mesh_convert -i innerSkull_sm.tri -o innerSkull_sm_flip.tri -invert
>  $ om_mesh_info -i innerSkull_sm_flip.tri
> om_mesh_info version 2.2.dev (exported) compiled at Mar  7 2012 15:37:20
>
>  load_tri : innerSkull_sm_flip.tri
> Mesh Info :
> # points : 2934
> # triangles : 5864
> Euler characteristic : 2
> Min Area : 6.55783
> Max Area : 28.9211
> Mesh orientation correct (valid for closed mesh).
>
>  this should fix the problem. Note that you can surely also smooth the
> meshes in matlab.
>
>  Alex
>  --
> Alexandre Gramfort, PhD
> alexandre.gramfort at inria.fr <alexandre.gramfort at inria.fr>
> INRIA Parietal Project Team, NeuroSpin CEA Saclay
> Bat. 145, PC 156
> 91191 Gif-sur-Yvette, France
> http://alexandre.gramfort.net
>
>  On Tue, Jun 12, 2012 at 3:25 AM, IMALI THANUJA HETTIARACHCHI <
> ith at deakin.edu.au> wrote:
>
>>  ****
>>
>> Dear FieldTrip users,****
>>
>> ****
>>
>> As I have faced problems in creating a head model with MRI's, so I
>> thought to try the MNI head for creating the meshes. I used the NeuroScansoftware to create the surface meshes and exported them to Matlab.
>> Then tried to crate the head model using ft_prepare_headmodel function.
>> however the 'om_minverser' stops working and the program terminates.****
>>
>> ****
>>
>> When I plot the meshes they seem fine to me so I assume that there is no
>> segmenting issues. But Now I get an error as attached in the 'log.txt'
>> from the Matlab workspace, which says about self intersecting meshes. I
>> have attached the Neuroscan exported meshes
>> (innerSkull.mat,outerSkull.mat,skin.mat) and the Matlab function
>> (m_file.txt) that I used in creating the head model.****
>>
>> ****
>>
>> I really want to generate some simulated EEG data but cannot make
>> anything work. If someone can give a guidance on where I am going wrong in
>> the procedure , that will be highly appreciated.****
>>
>> ****
>>
>> Many thanks.****
>>
>> ****
>>
>> Kind regards****
>>
>> ***Imali*
>>
>> ****
>>
>> *Imali Thanuja Hettiarachchi*
>>
>> PhD Candidate****
>>
>> Centre for Intelligent Systems research****
>>
>> Deakin University, Geelong 3217, Australia.****
>>
>> ****
>>
>> Mobile : +61430321972****
>>
>> Email: ith at deakin.edu.au
>> www.deakin.edu.au/cisr****
>>
>> ****
>>
>> [image: Description: Description: Description:
>> cid:1216BE20-1800-4A47-8B9F-E7B9D94831CD at deakin.edu.au] ****
>>
>> ****
>>
>>
>>
>> ****
>>
>> ****
>>
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>  --
> Alexandre Gramfort, PhD
> alexandre.gramfort at inria.fr
> INRIA Parietal Project Team @ NeuroSpin CEA Saclay
> Bat. 145, PC 156
> 91191 Gif-sur-Yvette, France
> http://www-sop.inria.fr/members/Alexandre.Gramfort/
>

-- 
Alexandre Gramfort, PhD
alexandre.gramfort at inria.fr
INRIA Parietal Project Team @ NeuroSpin CEA Saclay
Bat. 145, PC 156
91191 Gif-sur-Yvette, France
http://www-sop.inria.fr/members/Alexandre.Gramfort/
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