<div>Hi Peter,</div><div><br></div><div>It's in the documentation:</div><a href="http://www.brain.org.au/software/mrtrix/appendix/mrtrix.html">http://www.brain.org.au/software/mrtrix/appendix/mrtrix.html</a><br><br>There's also Matlab scripts to read & write the tracks in the matlab folder of the latest release (0.2.10).<div>
<br></div><div>Cheers,</div><div><br></div><div>Donald.</div><div><br><div><br><div class="gmail_quote">On 3 August 2012 14:47, Neher, Peter <span dir="ltr"><<a href="mailto:p.neher@dkfz-heidelberg.de" target="_blank">p.neher@dkfz-heidelberg.de</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi all,<br>
<br>
I was wondering if it is possible to get the exact specification of the fiber file format to write my own reader/writer.<br>
<br>
Best<br>
Peter<br>
<br>
<br>
Am 04.07.2012 um 13:50 schrieb Peter Neher:<br>
<div class="im"><br>
Hi Donald,<br>
<br>
thanks for the answer. I will check that out.<br>
<br>
Best,<br>
Peter<br>
<br>
On 07/04/2012 09:42 AM, Donald Tournier wrote:<br>
Hi Peter,<br>
<br>
</div>There is currently no probabilistic tensor tracking algorithm in MRtrix, but there is a deterministic FOD-based tracking algorithm (although I would always recommend the probabilistic version of the algorithm, for reasons outlined in this paper<<a href="http://onlinelibrary.wiley.com/doi/10.1002/ima.22005/abstract" target="_blank">http://onlinelibrary.wiley.com/doi/10.1002/ima.22005/abstract</a>>). Simply use the SD_STREAM algorithm in streamtrack:<br>
<br>
<a href="http://www.brain.org.au/software/mrtrix/commands/streamtrack.html" target="_blank">http://www.brain.org.au/software/mrtrix/commands/streamtrack.html</a><br>
<br>
Cheers,<br>
<br>
Donald.<br>
<div class="im"><br>
<br>
On 4 July 2012 16:45, Peter Neher <<a href="mailto:p.neher@dkfz-heidelberg.de">p.neher@dkfz-heidelberg.de</a><mailto:<a href="mailto:p.neher@dkfz-heidelberg.de">p.neher@dkfz-heidelberg.de</a>>> wrote:<br>
Hi Donald,<br>
<br>
that worked just fine, thank you! I have another question. The probabilistic tracking is only explained for the CSD data. Is it also possible to run it directly on the tensor data? And is it also working the other way round, meaning is there a deterministic tracking for the CSD data?<br>
<br>
Best,<br>
Peter<br>
<br>
<br>
On 07/04/2012 01:35 AM, Donald Tournier wrote:<br>
Hi Peter,<br>
<br>
This might be what you're looking for (kindly contributed by Philip Broser):<br>
<br>
<a href="http://www.brain.org.au/software/mrtrix/commands/tracks2vtk.html" target="_blank">http://www.brain.org.au/software/mrtrix/commands/tracks2vtk.html</a><br>
<br>
Cheers,<br>
<br>
Donald.<br>
<br>
<br>
</div><div class="im">On 3 July 2012 19:31, Peter Neher <<a href="mailto:p.neher@dkfz-heidelberg.de">p.neher@dkfz-heidelberg.de</a><mailto:<a href="mailto:p.neher@dkfz-heidelberg.de">p.neher@dkfz-heidelberg.de</a>>> wrote:<br>
Hi everybody,<br>
<br>
I am looking at the mrtrix tracking capabilities at the moment and I wondered if there is a way to convert the .tck files to the commonly used vtk ascii file format.<br>
<br>
Best regards<br>
Peter<br>
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Brain Research Institute, Melbourne, Australia<br>
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Dipl.-Inform. Peter Neher<br>
German Cancer Research Centre<br>
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Jacques-Donald Tournier (PhD)<br>
Brain Research Institute, Melbourne, Australia<br>
Tel: +61 (0)3 9035 7033<br>
<br>
<br>
--<br>
Dipl.-Inform. Peter Neher<br>
German Cancer Research Centre<br>
(DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft, Stiftung des öffentlichen Rechts)<br>
Division of Medical and Biological Informatics<br>
Im Neuenheimer Feld 280, D-69120 Heidelberg<br>
<br>
Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345<br>
</div>E-Mail: <a href="mailto:p.neher@dkfz-heidelberg.de">p.neher@dkfz-heidelberg.de</a><mailto:<a href="mailto:p.neher@dkfz-heidelberg.de">p.neher@dkfz-heidelberg.de</a>>, Web: <a href="http://www.dkfz.de" target="_blank">www.dkfz.de</a><<a href="http://www.dkfz.de/" target="_blank">http://www.dkfz.de/</a>><br>
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</div></div></blockquote></div><br><br clear="all"><div><br></div>-- <br>Jacques-Donald Tournier (PhD)<br>Brain Research Institute, Melbourne, Australia<br>Tel: +61 (0)3 9035 7033<br>
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