Hi Gavin,<div><br></div><div>I'm afraid I don't know much about Camino. I know Kiran Seunarine at UCL was working on converting the SH coefficients from my code into Camino, bit that was a long time ago, before the proper release of MRtrix. It would probably be best to email him to find out what procedure he'd recommend... I'm happy to be involved in the discussion, in case there are any specific questions I can help with.</div>
<div><br></div><div>Cheers,</div><div><br></div><div>Donald<br><br><div class="gmail_quote">On 24 June 2010 21:18, Gavin Winston <span dir="ltr"><<a href="mailto:g.winston@ucl.ac.uk">g.winston@ucl.ac.uk</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">Previously, I have been using the multitensor model and probabilistic tractography (PICo) in Camino. I would now like to use the CSD code from MRtrix, but ideally still perform the tractography within Camino (so I can compare the results more easily).<br>
<br>
It is possible to save the output of csdeconv as a 4D Analyze file. Camino appears to include a utility shformatconverter that should be able to convert these coefficients into Camino order. However, it is not working as expected. Does anybody have experience of doing this? If it is more appropriate to email the Camino list, I will do so.<br>
<br>
The steps I am taking are running shredder to convert to Big endian (as I run MRtrix on a Windows box), scanner2voxel to convert the coefficients so all the coefficients for each voxel are together, shformatconverter to reorder the coefficients, then sfpeaks. However, the result is nonsense.<br>
<br>
I assume that the order of the coefficients is Y(0,0); Im(Y2,2); Im(Y2,1) etc as documented by csdeconv -h as this is what shformatconverter seems to expect. However, the documentation manual within the package gives a completely different order.<br>
<br>
Gavin <br>
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</blockquote></div><br><br clear="all"><br>-- <br>Jacques-Donald Tournier (PhD)<br>Brain Research Institute, Melbourne, Australia<br>Tel: +61 (0)3 9496 4078<br>
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