Hi MRtrix3 Team,
Recently I did tckgen to generate whole brain tractogram using single shell CSD technique. My diffusion data has single b-value of 800 and 15 directions. I used ‘Tournier’ method for RF and ‘CSD’ method for single shell single tissue FOD computations. I also generated 5TT image using T1 image registered to Diffusion space. Whole brain tractogram was generated using tckgen with ACT, dynamic seeding from WM FOD and 5M streamlines. The tractogram that I obtained showed wrong fiber directions. For eg, the corpus callosum shows blue colored whereas it is expected to be in red for fibers connecting right-left. I would like to have your suggestions on what could be the mistake in my approach. Does it involve changing x/y/z sign in generating mif files?
PFA attached few screenshots showing DTI FA map, CSD FOD image, WB tractogram.