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<div class="moz-cite-prefix">Hi Donald,<br>
<br>
Quick suggestion: putting a link on the <a
href="http://www.brain.org.au/software/mrtrix/">Mrtrix 0.2 page</a>
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).<br>
<br>
<pre class="moz-signature" cols="72">Kind regards,
Ivan Alvarez
PhD Candidate
Imaging and Biophysics Unit
UCL Institute of Child Health
30 Guilford Street, London, WC1N 1EH </pre>
On 15/12/2014 3:13, J-Donald Tournier wrote:<br>
</div>
<blockquote
cite="mid:CAHgym8KWZHySbPNwNynHqF=RVVO5csKU0r=uiTpJFiRURR+9Wg@mail.gmail.com"
type="cite">
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<div dir="ltr">Hi Francesco,
<div><br>
</div>
<div>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.</div>
<div><br>
</div>
<div>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!</div>
<div><br>
</div>
<div>Cheers,</div>
<div>Donald. <br>
</div>
<div><br>
</div>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">On 14 December 2014 at 13:05, Francesco
Sammartino <span dir="ltr"><<a moz-do-not-send="true"
href="mailto:francesco.sammartino.nch@gmail.com"
target="_blank">francesco.sammartino.nch@gmail.com</a>></span>
wrote:
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">
<p dir="ltr">Dear all,<br>
I'm enthusiastic about mrtrix. Is there any hands on
course / bootcamp on it?<br>
thank you</p>
<p dir="ltr">Francesco Sammartino MD</p>
<div class="gmail_quote">On Dec 14, 2014 7:52 AM, "J-Donald
Tournier" <<a moz-do-not-send="true"
href="mailto:jdtournier@gmail.com" target="_blank">jdtournier@gmail.com</a>>
wrote:<br type="attribution">
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">
<p dir="ltr">Hi Manuel,</p>
<p dir="ltr">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...</p>
<p dir="ltr">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: <br>
<a moz-do-not-send="true"
href="http://www.brain.org.au/software/mrtrix/faq.html#normalise_tracks"
target="_blank">http://www.brain.org.au/software/mrtrix/faq.html#normalise_tracks</a><br>
I'm sure that idea could be adapted for DTI-TK too.</p>
<p dir="ltr">Cheers, <br>
Donald</p>
<p dir="ltr">--<br>
Dr J-Donald Tournier (PhD)</p>
<p dir="ltr">Senior Lecturer, Biomedical Engineering<br>
Division of Imaging Sciences & Biomedical
Engineering<br>
King's College London</p>
<p dir="ltr">A: Department of Perinatal Imaging &
Health, 1st Floor South Wing, St Thomas' Hospital,
London. SE1 7EH<br>
T: <a moz-do-not-send="true"
href="tel:%2B44%20%280%2920%207188%207118%20ext%2053613"
value="+442071887118" target="_blank">+44 (0)20 7188
7118 ext 53613</a><br>
W: <a moz-do-not-send="true"
href="http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering"
target="_blank">http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering</a><br>
</p>
<div class="gmail_quote">On 12 Dec 2014 10:40, "Manuel
Blesa Cábez" <<a moz-do-not-send="true"
href="mailto:mblesac@gmail.com" target="_blank">mblesac@gmail.com</a>>
wrote:<br type="attribution">
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">
<p dir="ltr">Dear all, </p>
<p dir="ltr">I have a doubt, is possible to convert
tensor images of DTI-TK to do the tractography
with MRtrix? Thanks in advance.</p>
<p dir="ltr">Best regards,</p>
<p dir="ltr">Manuel Blesa</p>
<br>
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-- <br>
<div class="gmail_signature">
<div dir="ltr"><b><font color="#990000">Dr J-Donald Tournier
(PhD)</font></b><br>
<div><font color="#990000"><br>
</font></div>
<i><font color="#990000">Senior Lecturer, </font></i><i><font
color="#990000">Biomedical Engineering</font></i>
<div><i><font color="#990000">Division of Imaging Sciences
& Biomedical Engineering<br>
King's College London</font></i>
<div><i><font color="#990000"><br>
</font></i></div>
<div><i><font color="#990000"><b
style="font-family:Calibri,sans-serif;font-size:15px"><span
style="font-size:10pt">A:</span></b><span
style="font-family:Calibri,sans-serif;font-size:10pt"> Department
of Perinatal Imaging & Health, 1<sup>st</sup> Floor
South Wing, St Thomas' Hospital, London. SE1 7EH</span><br>
</font></i></div>
<div><i><font color="#990000"><b>T:</b> +44 (0)20 7188
7118 ext 53613</font></i></div>
</div>
<div><i><font color="#990000"><b>W:</b> <a
moz-do-not-send="true"
href="http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering"
target="_blank">http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering</a></font></i><br>
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