See this page to figure out how to get the scanner coords
https://surfer.nmr.mgh.harvard.edu/fswiki/CoordinateSystems
On 05/24/2018 05:21 PM, Bruce Fischl wrote:
> Hi Giulia
>
> find the vertex index of the vertex you are interested in, then read
> the surface whose RAS coordinates you want (e.g. the white or pial)
> and lookup the RAS coords of the vertex at that index.
>
> cheers
> Bruce
> On Thu, 24 May 2018, Giulia Liberati wrote:
>
>>
>> External Email - Use Caution
>>
>> Dear FreeSurfer experts,
>> How can you obtain RAS coordinates for an inflated surface when you
>> have vertex #?
>>
>> I am using the function read_surf('lh.inflated') to find the
>> coordinates of some electrode contacts
>> located in the left insula. However, when I plot the coordinates
>> using plotPialSurf (iElVis), these
>> locations are completely off (i.e., far outside from the insula).
>>
>> I don't understand what is going wrong.
>>
>> Any possible explanation?
>>
>> Thanks in advance!
>>
>> Giulia
>>
>>
>>
>>
>> --
>> Giulia Liberati, PhD
>>
>> Institute of Neuroscience (IoNS)
>> Université catholique de Louvain
>> Avenue Mounier 53 bte B1.53.02 à 1200 Woluwe-Saint-Lambert
>> Claude Bernard; Etage 02; Local 0826; Site Bruxelles Woluwe
>> Brussels, Belgium
>>
>>
>
>
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