[Mrtrix-discussion] How to read fibers in .tck file

[Donald Tournier]

Hi again,

Just to follow up on that, there is a slightly roundabout way of displaying
the tracks in 3D in MRView: load an image, and load the tracks in the
tractography sidebar. Untick the 'Lock to Image Axes' option in the View
menu, and untick the 'crop to slab' option in the sidebar. You can then
rotate the projection by holding down the Ctrl key while dragging with the
mouse, holding down the left mouse button to rotate in-plane, and the
middle button to rotate out-of-plane.

This is admittedly not a documented feature, I need to add it in when I
have a minute...

Cheers,

Donald.


On 27 February 2012 12:22, Donald Tournier <d.tournier at brain.org.au> wrote:

> Hi Dan,
>
> There's quite a few options here. You can export the track data using the
> -ascii option of track_info<http://www.brain.org.au/software/mrtrix/commands/track_info.html> (produces
> one text file per track), or the tracks2vtk<http://www.brain.org.au/software/mrtrix/commands/tracks2vtk.html> command
> (produces one file in VTK format). You can also load the track data into
> Matlab using the 'read_mrtrix_tracks.m' command included in the matlab
> folder of the latest release. Otherwise, the format itself is now described
> in the documentation:
> http://www.brain.org.au/software/mrtrix/appendix/mrtrix.html.
>
> Hope that helps.
> Cheers,
>
> Donald.
>
>
> On 25 February 2012 03:49, Dan Wu <dwu18 at jhmi.edu> wrote:
>
>>  Hello All,
>>
>>  I would like to extract the fibers that I tracked using mrtrix and
>> converts them to other formats so that I could visualize them in 3D in some
>> other softwares (I primarily using DtiStudio). Can I know the organization
>> of .tck files? Or does mrtrix have function to visualize fibers in 3D?)
>>
>>  And two side questions: 1) If using SD_STREAM method, is that only one
>> fiber will be tracked out of one voxel (or the interpolated voxel)? 2) will
>> you implement DT_PROB method in the future?
>>
>>  Thanks a lot!
>>
>>  Regards,
>>
>>  Dan
>>
>> _______________________________________________
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>> Mrtrix-discussion at www.nitrc.org
>> http://www.nitrc.org/mailman/listinfo/mrtrix-discussion
>>
>>
>
>
> --
> Jacques-Donald Tournier (PhD)
> Brain Research Institute, Melbourne, Australia
> Tel: +61 (0)3 9035 7033
>



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