[Mrtrix-discussion] MRtrix / Camino interoperability
Gavin Winston
g.winston at ucl.ac.uk
Thu Jun 24 04:18:30 PDT 2010
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).
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.
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.
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.
Gavin
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