[FieldTrip] plotting freesurfer mesh on the mri_aligned.
Darren.Price at mrc-cbu.cam.ac.uk
Tue Oct 4 18:45:07 CEST 2016
For a non-linear interpolation onto a regular grid, spm_mesh_to_grid might be ideal (from the spm package of course). I don't have a working example to hand, but I may be able to dig one out if you can't get it working.
Dr. Darren Price
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From: fieldtrip-bounces at science.ru.nl [mailto:fieldtrip-bounces at science.ru.nl] On Behalf Of parham hashemzadeh
Sent: 04 October 2016 16:59
To: FieldTrip discussion list <fieldtrip at science.ru.nl>
Subject: Re: [FieldTrip] plotting freesurfer mesh on the mri_aligned.
Thank you, my functional data are the function values of some function (irrotational component of the current). From my limited experience of Fieldtrip, your explanation feels (to myself) a bit cryptic at the moment.
You see if my inversion strategy was one of the classical ones such as the ones provided by "ft_sourceanalysis" lcmv,sam,..., eloreta
then the available fieldtrip tutorials are great in showing how to plot functional values on the top of anatomical values.
But, since, I work on inversion methods, then I need a hacking strategy to be able to plot functional values of "some function"(estimated) on top of anatomical data MRI.
I would appreciate if you would kindly let me know, if there is hack to it such that
ft_sourceplot can accept the input.
best regards parham
On 2016-10-04 16:29, Schoffelen, J.M. (Jan Mathijs) wrote:
> Hi Parham,
> It is possible, but certainly not pain free, nor straightforward.
> I think this is not really a fieldtrip question, but more a general
> matlab related issue.
> It should be possible to plot a slice through an MRI volume as a
> MATLAB patch, where the coordinates of the voxels are expressed in
> some coordinate system. Then, it is possible to generate and
> intersection of the freesurfer mesh through the plane of
>> On 04 Oct 2016, at 16:41, parham hashemzadeh <ph442 at cam.ac.uk> wrote:
>> Dear Fieldtrippers
>> Is there a straightforward pain free method ( I appreciate if you can
>> give me the command)
>> to plot arbitrary points such as the vertices of the freesurfer output
>> (mesh) onto the MRI image?
>> The reason that I ask is that I would like to plot my solution on the
>> MRI image.
>> Unfortunately I do not use dipoles. In EEG, I model the irrotational
>> component of the current as a scalar function and therefore I am doing
>> function estimation.
>> IF you use dipoles, it is straightforward because you follow one of
>> the tutorials.
>> But if you do not use dipoles and model the current as the gradient
>> of the irrotational component of the current in EEG then one can get
>> Any help would be appreciated.
>> Many thanks
>> best regards
>> Parham Hashemzadeh
>> Research Associate
>> Department of Applied Mathematics and Theoretical Physics
>> University of Cambridge, UK.
>> email: hashemzadeh at damtp.cam.ac.uk
>> fieldtrip mailing list
>> fieldtrip at donders.ru.nl
> fieldtrip mailing list
> fieldtrip at donders.ru.nl
Department of Applied Mathematics and Theoretical Physics
University of Cambridge, UK.
email: hashemzadeh at damtp.cam.ac.uk
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