[Mrtrix-discussion] Course

[Ivan Alvarez]

Hi Donald,

Quick suggestion: putting a link on the Mrtrix 0.2 page 
<http://www.brain.org.au/software/mrtrix/> pointing to the GitHub wiki 
would be pretty useful. The former still appears first when you google 
MRtrix (I get a few lost souls asking about v0.2 every now and then).

Kind regards,
Ivan Alvarez

PhD Candidate
Imaging and Biophysics Unit
UCL Institute of Child Health
30 Guilford Street, London, WC1N 1EH

On 15/12/2014 3:13, J-Donald Tournier wrote:
> Hi Francesco,
>
> No, we don't run such courses, I don't think there would be enough 
> demand for it (?). I do get the odd query on the topic, but that's 
> about it.
>
> That said, I do think it would be good to have a bit more information 
> than the current documentation (particularly for the MRtrix3 
> version...). I'm not sure what people would find most useful. One idea 
> that we'd discussed in the past was to provide a sample dataset 
> combined with tutorials and worked examples that people could run 
> through on their own computers. I think this might be the best way 
> forward, I'll have a look into this when I have a minute. Those using 
> MRtrix3 will have noticed that we have a wiki on GitHub, which should 
> allow other users to add to the documentation where they feel it's 
> lacking (contributions are always welcome!). This would probably be 
> the most obvious place to expand, especially since development on 
> MRtrix 0.2.X has been essentially stagnant for the last 3-4 years... 
> If anyone feel like contributing by adding to the wiki, providing data 
> for a tutorial, writing a tutorial, or simply expression your opinion 
> on the topic, please feel free to dive in!
>
> Cheers,
> Donald.
>
>
> On 14 December 2014 at 13:05, Francesco Sammartino 
> <francesco.sammartino.nch at gmail.com 
> <mailto:francesco.sammartino.nch at gmail.com>> wrote:
>
>     Dear all,
>     I'm enthusiastic about mrtrix. Is there any hands on course /
>     bootcamp on it?
>     thank you
>
>     Francesco Sammartino MD
>
>     On Dec 14, 2014 7:52 AM, "J-Donald Tournier" <jdtournier at gmail.com
>     <mailto:jdtournier at gmail.com>> wrote:
>
>         Hi Manuel,
>
>         I don't think that can be done - the tensor tracking algorithm
>         in MRtrix takes the raw DWI as input, so that it can do
>         interpolation on the raw DW signals. I'm guessing the tensor
>         images produced by DTI-TK have been non-linearly registered,
>         so there's no way of using the original DWI. One potential way
>         around it would be to generate some fake DWI signals from the
>         DTI-TK output and feed that to streamtrack. Sounds a little
>         too much of a hack for comfort though, not sure I'd recommend
>         that - mind you, I wouldn't recommend tensor tracking in the
>         first place either...
>
>         Another approach worth exploring would be do the tracking in
>         native space and warp the tracks to the other space
>         afterwards, using the approach outlined here:
>         http://www.brain.org.au/software/mrtrix/faq.html#normalise_tracks
>         I'm sure that idea could be adapted for DTI-TK too.
>
>         Cheers,
>         Donald
>
>         --
>         Dr J-Donald Tournier (PhD)
>
>         Senior Lecturer, Biomedical Engineering
>         Division of Imaging Sciences & Biomedical Engineering
>         King's College London
>
>         A: Department of Perinatal Imaging & Health, 1st Floor South
>         Wing, St Thomas' Hospital, London. SE1 7EH
>         T: +44 (0)20 7188 7118 ext 53613
>         <tel:%2B44%20%280%2920%207188%207118%20ext%2053613>
>         W:
>         http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering
>
>         On 12 Dec 2014 10:40, "Manuel Blesa Cábez" <mblesac at gmail.com
>         <mailto:mblesac at gmail.com>> wrote:
>
>             Dear all,
>
>             I have a doubt, is possible to convert tensor images of
>             DTI-TK to do the tractography with MRtrix? Thanks in advance.
>
>             Best regards,
>
>             Manuel Blesa
>
>
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>
>
> -- 
> *Dr J-Donald Tournier (PhD)*
>
> /Senior Lecturer, //Biomedical Engineering/
> /Division of Imaging Sciences & Biomedical Engineering
> King's College London/
> /
> /
> /*A:* Department of Perinatal Imaging & Health, 1^st  Floor South 
> Wing, St Thomas' Hospital, London. SE1 7EH
> /
> /*T:* +44 (0)20 7188 7118 ext 53613/
> /*W:* 
> http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering/
>
>
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