Transform tractography outputs to a .nii file

1

Dear experts,

I have utilized MRtrix and tractography toolbox TractSeg to reconstruct 72 white matter tracts for each subject. I want to transform the tractography output .tck file of each tract to .nii file, and I am not sure what codes should I use.

By the way, after transforming the .tck files to .nii files, can I merge these 72 .nii file into one file to create a subject-specific white matter segmentation atlas for each participant?

Look forward to any suggestions!

Chai

2

Hi Chai,

Please check out the tckmap and the mrthreshold commands for creating binary tract maps. Note that some TractSeg-generated tracts greatly overlap each other, e.g., the striato- and thalamo- ones in particular. Check this forum and the MRtrix documentation for details.

Cheers

William