Hi,
If you're on a linux box, you can display x,y,z planes using the
'x','y','z' keys. If you align them to the area of interest, the
coordinates displayed should be the voxel coordinates (as displayed in the
standard operational fslview view) multiplied by the resolution. This may
help find the corresponding vertices in the vtk file.
Cheers,
Brian
> Hi,
>
> The segmented images are in native space (just look at the size of the
> images).
> There are also surface files, and these also contain coordinates
> relevant
> for the native space (though using an internal coordinate convention).
>
> Unfortunately there is no easy way to find corresponding coordinates at
> the moment. It is possible to look through the vtk file to find peak
> values,
> then extract the vtk coordinate and convert this into a volumetric
> coordinate, but it is not easy at present. Is this an important thing
> to do?
> You can visualise where the changes are with respect to the standard
> space by viewing the standard space image planes in conjunction with
> the surface results. See the FSLView documentation and the FSL course
> practical on segmentation with FIRST for examples of this.
>
> Finally, to get the segmented image into standard space, just apply
> the saved
> transformation matrix (a file named *_to_std_sub.mat) using flirt with
> the
> -applyxfm flag, or alternatively, use the ApplyXFM GUI.
>
> All the best,
> Mark
>
>
>
> On 9 Dec 2009, at 03:34, Zhangyuanchao wrote:
>
>> Hi, there,
>>
>> I want to know what space the subjects are in.
>>
>> Using FIRST, subcortical structures are segmented, Is the segmented
>> subcortical structure in the subject's native space or in some
>> standard space?
>> What space are they in?
>>
>> If I get a cluster of atrophy on the surface of a subcortical
>> structure, how could I obtain its volume's corresponding coordinate?
>>
>> How can I obtain the segmented subcortical structure in their native
>> space and standard space respectively?
>>
>> Thanks
>>
>> yuanchao
>>
>> 好玩贺卡等你发,邮箱贺卡全新上线!
>
>
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