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TOPIC: Running tractography

Running tractography 10 years 1 month ago #15

  • cvalencia
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Hi Sergio,
I just trying to use diffusion module in this new version of Medinria.
I followed the instructions, dragging and droping the image within the left black box.
It asks me about the gradients and I add the txt file (attached).
After that I press run tractography, nothing happens, I don´t see any progress bar running.
I dont know also, if my bvecs file is ok, I extracted from the dcm2nii program, and the reorganized as the web page suggest.
Thanks in advance for your help,
Carolina V.
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Re: Running tractography 10 years 1 month ago #17

  • bbleuze
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Good morning Carolina,

(I moved your question to a new topic since the issue here is slightly different, I hope you don't mind)

before running the tractography, you need to compute the associated FA. In the next revision we will probably make the needed steps clearer.

Benoit.
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Re: Running tractography 10 years 1 month ago #21

  • cvalencia
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Hi Benoit,
Thanks for your answer and sorry for using other topic, I think I was talking about the same subject, because I computed the tensors, and run the FA before running tractography, it shows the new entities on the left but all empties, I dont see anything in the middle visualization box. So, I was guessing the problem was the gradients file.
I attached again,
And thanks for your time,
Carolina
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Re: Running tractography 10 years 1 month ago #25

  • pabloreyesg
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Hi!!!

The first line of the gradients should be 0 0 0, in most cases.
Programs like dcm2nii gradient values ​​extracted from DICOM files. However dcm2nii sometimes does not do what you owe. try to use it in linux...
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Re: Running tractography 10 years 1 month ago #26

  • smedina
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Hi @cvalencia,

Could you run the algorithm?

If not, would you mind trying with the sample data we provide? you can find it in the downloads page, or just click here.

serch.-
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