[Mne_analysis] forward model having only segmentation files

[dgw]

Hi Anton,

The only thing I can think of would be to use mne_volume_source_space. 
You would still need to generate a couple of surfaces for your BEM, but 
this should not be very difficult. If you need more advice about that, 
please let me know.

D

tokariev at mappi.helsinki.fi wrote:
> Hello Alex,
> 
> Thank you very much for your reply. I completely understand that it is  
> better to use Freesurfer first. But I deal with neonatal data. And  
> Freesurfer, unfortunately, fails to analyse such kind of data (when I  
> tried it even did not create all folders and files, those i could edit  
> manually). As far as I got from literature, people (almost) always do  
> segmentation of neonatal data manually and then launch Freesurfer. But  
> it takes a lot of time to do and is not trivial task. But I have  
> already segmentation files done in FSL. So, my idea was somehow to use  
> them in MNE to get forward model. What would you recommend? What do  
> you think the most optimal way to act in my case?
> 
> Regards,
> Anton
> 
> Цитирую "Alexandre Gramfort" <gramfort at nmr.mgh.harvard.edu>:
> 
>> Hello Anton,
>>
>> it's doable but it's far from trivial as it requires you to understand the
>> internal of the MNE anatomical pipeline (where MNE expects to find
>> the files etc.). I would seriously consider running freesurfer on my subject
>> and rely the automatic / standard pipeline. Freesurfer also gives you
>> all the segmentations including the cortical surface for sources' locations.
>>
>> Alex
>>
>> On Thu, Mar 8, 2012 at 2:31 PM,  <tokariev at mappi.helsinki.fi> wrote:
>>> Dear all,
>>>
>>> I want to create forward model in MNE software. But I have only
>>> segmentation data (skull.mgz, skin. mgz, brain.ngz) got in FSL
>>> software + EEG electrodes coordinates. Is it possible to do at all? If
>>> yes, could anyone give me an advice how to do it or refer to some
>>> tutorial where I could read about. I've read how to do it having 'raw'
>>> data and using Freesurfer software + MNE. But in my case all I have
>>> only are segmentation files and file with electrodes positions.
>>>
>>> Regards,
>>> Anton
>>>
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