Help with Diffusion Tensor Imaging (DTI) in MRtrix3 !!

Hi,

I am new to MRtrix3 and currently working on diffusion tensor imaging (DTI) analysis. I have been following the tutorial guides…, but I am running into an issue when trying to preprocess my DTI data. Specifically;, after performing the dwi2tensor command, I am unsure how to proceed with the next steps, particularly when it comes to calculating fractional anisotropy (FA) maps.

When I run the command tensor2metric to generate FA, it seems to work without errors;, but the FA map looks very sparse and noisy. I have double checked my DWI data and the b-matrix and everything seems correct so I am not sure what might be going wrong.

Has anyone encountered a similar issue with sparse FA maps in MRtrix3: ?? I would greatly appreciate any guidance or suggestions to improve the quality of the FA map.

Thanks in advance for your help !!

With Regards,
MarceloMendix

Hi Marcelo,

Its hard to QC your data without seeing a picture, when you say it is noisy, noisy in what way? Did you follow the typical preprocessing steps when calculating it (eddy correction etc)?

Best,

John