Maxime's [Gallery] Reconst DTI example revisited #204
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…the CsaOdfModel DIPY example
… odf model sh coefficients and gfa computed from it
… example on the Gallery
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Alright, I believe this is now ready to be merged! |
| nib.save(fa_img, 'tensor_fa.nii.gz') | ||
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| """ | ||
| You can now see the result with any nifti viewer or check it slice by slice | ||
| using matplotlib_'s imshow. In the same way you can save the eigen values the | ||
| using matplotlib_'s imshow. In the same way you can save the eigen values, the |
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This might have originally been my error, but I believe "eigenvalues" s.b. one word.
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I have no clue. I have seen all three case eigen-values, eigen values and eigenvalues. I am happy to change this to eigenvalues.
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In general - this is a great improvement. I will try to build upon this in On Thu, Jun 20, 2013 at 7:00 AM, Eleftherios Garyfallidis <
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| nib.save(evecs_img, 'tensor_evecs.nii.gz') | ||
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| """ | ||
| Now, lets get the tensor coefficients D and format them for them |
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and format them for them? I don't really get it, is it a typo?
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This PR is ready to be merged. |
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@Garyfallidis Done responding to @arokem? @arokem Happy with current status? |
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Hi @stefanv. Good point. I have responded to Ariel's concerns. At least as much as I could. Basically, I am not proficient to answer his question about using or not an utility function to save the symmetric tensors. I think this is more a question for @matthew-brett and @MrBago. Thank you for bringing it up. |
DOC: Changed the url for the Fibernavigator.
…xample or to be used with dipy.external or dipy.io
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Hello, after some good thought it seems that the first dipy tutorial which is this one (reconst_dti.py) should be all about dipy functions. In another PR will update this example with tensor visualization (I am on it :)) not only odf visualization with the fvtk plugin. We will try to make a fibernav-dipy specific tutorial with @mdesco and add some external functions for fibernav in dipy.external or dipy.io. As we did for fsl. If someone has more thoughts on how we could save the tensors to support most of the platforms around please do that in a different PR. Can someone go ahead and merge this PR as all comments have been now addressed? |
Maxime's [Gallery] Reconst DTI example revisited
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Hooray! |
Hello,
I have rebased and fixed some conflicts with this PR. This is replacing #193.