[Mrtrix-discussion] Basics: FA of a .tck file

[Donald Tournier]

Hi Tyler,

I'm not sure this is exactly what you want to do, but the simplest thing is
to create a mask image from the tracks and read the FA values within the
mask. A command for this might look like:

$ tracks2prob yourtracks.tck -template fa.mif - | threshold - -abs 5 - |
mrstats fa.mif -mask -

This will give you the average FA within those voxels that have been
visitied by more than 5 tracks.

Cheers,

Donald.



On 6 June 2012 09:20, Tyler Rickards <tyler.rickards at gmail.com> wrote:

> Hello -
> My lab is just starting to work with Spherical Deconvolution to examine DT
> images.  We have used other imaging methods in the past and like this
> technique very much, but after we create the .tck files, how do we get the
> underlying FA value of the tracks we have isolated?  I don't see any
> options in the GUI and I am unaware of the commands necessary for getting
> FA of the tracks we are considering.
> Could you shed some light on this? Is there a simple command I'm missing?
> Thank you.
> Tyler.
> --
> Graduate Student
> Medical/Clinical Psychology Program
> Department of Psychology
> University of Alabama at Birmingham
>
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>


-- 
Jacques-Donald Tournier (PhD)
Brain Research Institute, Melbourne, Australia
Tel: +61 (0)3 9035 7033
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