[FieldTrip] change radiological to neurological convention

[jan-mathijs schoffelen]

Hi Kathrin,

> 1) Is it correct that the functional data is flipped when the anatomy is in radiological convention (left is right)? 

Yes. FieldTrip does not have any of the 'conventions'. It just takes the data as it is represented in the mri-file (i.e. the block of voxels is oriented in a certain way, and FT just plots along the 3 cardinal voxel axes). For example, in DICOM images the voxel axes are often left-handed, leading to visualization according the 'radiological' convention.


> 2 ) How can I change the transformation matrix of my anatomy so that my results are plotted in neurological convention (i.e. left is left) - with ft_volumenormalise or ft_volumerealign?

If the coordinate system in which the data are defined is right-handed, you can use ft_volumereslice to get the anatomical image to be visualized in neurological convention.
This function only works on anatomical data, so you should first reslice the anatomical data and only then interpolate the functional data onto the resliced anatomy.

Best,

Jan-Mathijs


> Any help is very much appreciated.
> 
> Best,
> Kathrin
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Jan-Mathijs Schoffelen, MD PhD 

Donders Institute for Brain, Cognition and Behaviour, 
Centre for Cognitive Neuroimaging,
Radboud University Nijmegen, The Netherlands

Max Planck Institute for Psycholinguistics,
Nijmegen, The Netherlands

J.Schoffelen at donders.ru.nl
Telephone: +31-24-3614793

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