[Mrtrix-discussion] Tracks file format (.tck)

[Donald Tournier]

Hi Peter,

It's in the documentation:
http://www.brain.org.au/software/mrtrix/appendix/mrtrix.html

There's also Matlab scripts to read & write the tracks in the matlab folder
of the latest release (0.2.10).

Cheers,

Donald.


On 3 August 2012 14:47, Neher, Peter <p.neher at dkfz-heidelberg.de> wrote:

> Hi all,
>
> I was wondering if it is possible to get the exact specification of the
> fiber file format to write my own reader/writer.
>
> Best
> Peter
>
>
> Am 04.07.2012 um 13:50 schrieb Peter Neher:
>
> Hi Donald,
>
> thanks for the answer. I will check that out.
>
> Best,
> Peter
>
> On 07/04/2012 09:42 AM, Donald Tournier wrote:
> Hi Peter,
>
> 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<
> http://onlinelibrary.wiley.com/doi/10.1002/ima.22005/abstract>). Simply
> use the SD_STREAM algorithm in streamtrack:
>
> http://www.brain.org.au/software/mrtrix/commands/streamtrack.html
>
> Cheers,
>
> Donald.
>
>
> On 4 July 2012 16:45, Peter Neher <p.neher at dkfz-heidelberg.de<mailto:
> p.neher at dkfz-heidelberg.de>> wrote:
> Hi Donald,
>
> 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?
>
> Best,
> Peter
>
>
> On 07/04/2012 01:35 AM, Donald Tournier wrote:
> Hi Peter,
>
> This might be what you're looking for (kindly contributed by Philip
> Broser):
>
> http://www.brain.org.au/software/mrtrix/commands/tracks2vtk.html
>
> Cheers,
>
> Donald.
>
>
> On 3 July 2012 19:31, Peter Neher <p.neher at dkfz-heidelberg.de<mailto:
> p.neher at dkfz-heidelberg.de>> wrote:
> Hi everybody,
>
> 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.
>
> Best regards
> Peter
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>
> --
> Jacques-Donald Tournier (PhD)
> Brain Research Institute, Melbourne, Australia
> Tel: +61 (0)3 9035 7033
>
>
> --
> Dipl.-Inform. Peter Neher
> German Cancer Research Centre
> (DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft,
> Stiftung des öffentlichen Rechts)
> Division of Medical and Biological Informatics
> Im Neuenheimer Feld 280, D-69120 Heidelberg
>
> Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345
> E-Mail: p.neher at dkfz-heidelberg.de<mailto:p.neher at dkfz-heidelberg.de>,
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>
> --
> Jacques-Donald Tournier (PhD)
> Brain Research Institute, Melbourne, Australia
> Tel: +61 (0)3 9035 7033
>
>
> --
> Dipl.-Inform. Peter Neher
> German Cancer Research Centre
> (DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft,
> Stiftung des öffentlichen Rechts)
> Division of Medical and Biological Informatics
> Im Neuenheimer Feld 280, D-69120 Heidelberg
>
> Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345
> E-Mail: p.neher at dkfz-heidelberg.de<mailto:p.neher at dkfz-heidelberg.de>,
> Web: www.dkfz.de<http://www.dkfz.de/>
>
> The information contained in this message may be confidential and legally
> protected under applicable law. The message is intended solely for the
> addressee(s). If you are not the intended recipient, you are hereby
> notified that any use, forwarding, dissemination, or reproduction of this
> message is strictly prohibited and may be unlawful. If you are not the
> intended recipient, please contact the sender by return e-mail and destroy
> all copies of the original message.
>
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-- 
Jacques-Donald Tournier (PhD)
Brain Research Institute, Melbourne, Australia
Tel: +61 (0)3 9035 7033
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