[Eeglablist] talaraich coordinate question

[Alejandro]

Hi Julia and all,

Yes indeed Arno, a years ago I wrote a little code to label dipoles that 
are in MNI space, I believe it was incorporated in MTP plugin (Nima 
Bigdely-Shamlo). I'm copying the name of the function with its help so 
you can check if you have it, if not let me know and I'll send it to you.

Alejandro

--------------  matlab code ---------------------

% [Pdipoles,labels] = label_dipoles(points)
%
% Description:
%
% Computes the prior probabilities of dipoles to belong to certain
% anatomical regions, given a brain atlas.
%
% Inputs:
%
% points: N X 3 set of N dipole locations in MNI space, if the size of 
points
% is N X 4, the column 4 represents the uncertainty in the localization 
of the
% dipole, this can be used to construct a spheroidal pdf centered on 
each dipole, by
% default, the sigma of the pdf is 0.
%
% Outputs:
%
% Pdipoles: N X Number of anatomical regions, contains the probability 
of each
% dipole to belong to different anatomical regions.
%
% labels: cell array with the name of the anatomical regions
%
% Note: This software has been tested using the LPBA40/SPM5(GM) maps
% povided by the LONI project and defined in the article:
% David W. Shattuck, et al., Construction of a 3D probabilistic atlas of 
human cortical structures, NeuroImage,
% Volume 39, Issue 3, 1 February 2008, Pages 1064-1080, ISSN 1053-8119, 
DOI: 10.1016/j.neuroimage.2007.09.031.
% 
(http://www.sciencedirect.com/science/article/B6WNP-4PSC25J-1/2/213a6d22d8a5b67b411e2de09a7d03bf)
%
% Author: Alejandro Ojeda, SCCN, INC, UCSD, 13-Apr-2011
% email: alejandro at sccn.ucsd.edu


On 12/12/2012 08:30 PM, Arnaud Delorme wrote:
> Dear Julia,
>
> yes there are tools. I think Nima in our lab interfaced from Matlab a tool to indicate which brain region a coordinate in dipplot correspond to. Or maybe it was Alejandro? Both copied just in case.
>
> Best wishes,
>
> Arno
>
> On 30 Nov 2012, at 14:27, Julia Kline wrote:
>
>> Tarik, thanks for the help. Although I must admit I am a little
>> confused. You said that:
>>
>> The question of which software that is best for determining closest
>> BA or region for a specific set of coordinates is different from the
>> question of which software or algorithm is best
>> for your needs in  determining source estimates to begin with.
>>
>> In that case, can I pose both questions to the list? I would like to
>> localize my independent components to their nearest brodmann areas.
>> What software do you feel is best to determine source estimates and
>> also what software do you feel is best for determining BA or region of
>> interest from a specific set of talairach coordinates returned by
>> eeglab?
>>
>> Thanks!
>>
>> -Julia
>>
>>
>>
>>
>>
>> On Thu, Nov 29, 2012 at 3:32 PM, Tarik S Bel-Bahar
>> <tarikbelbahar at gmail.com> wrote:
>>> Hi Julia,
>>>
>>> I use the Tailarch client too to get a rough idea
>>> of nearest BAs for a particular "estimated" dipole.
>>>
>>> The dipfit estimations of dipoles that account for particular ICs
>>> "in or near" a particular brain area or region should be taken with some
>>> caution.
>>> There are issues with not easily constraining results to cortex,
>>> and with interpreting/coordinating results with other source estimation
>>> techniques or software.
>>>
>>> Last, the question of which software is best for determining closest
>>> BA or region for a specific set of coordinates...
>>>
>>> is different from the question of what software or algorithm is best
>>> for your needs in  determining source estimates to begin with.
>>>
>>>
>>> Respectfully,
>>> Tarik
>>>
>>>
>>>
>>> On Wed, Nov 28, 2012 at 12:28 PM, Julia Kline <jekline at umich.edu> wrote:
>>>> Hi all. I had a question regarding working with the talaraich
>>>> coordinate output of pop_dipfit.
>>>> It is my understanding that pop_dipfit returns the talaraich
>>>> coordinates of the equivalent current dipoles and plots them inside a
>>>> standard MNI brain.
>>>> Our lab has been using talaraich client to find the equivalent
>>>> brodmann areas for these coordinates.
>>>>
>>>> In your experience, is this the best software for identifying brodmann
>>>> areas? I had heard that there were other better methods and I wanted
>>>> to ask what you have found to be the most method of identifying
>>>> brodmann areas. Thanks.
>>>>
>>>> -Julia
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