I am currently working in the field of aging. I belong to an incipient group with little experience in handling neuroimaging data. I am currently trying to establish a protocol for DTI image analysis, specifically I am interested in carrying out a TBSS analysis. So far I have managed to perform TBSS analyses using only FSL by following this steps:
Are there any further steps you recommend? I have seen that MRTrix allows to perform some major steps to correct the images such as denoising, but I don’t know in which step of the proposed protocol I should apply them (before/after TOPUP) or if it really makes sense in the context of TBSS. Another question I have is if there would be any problem when converting .mif files to .nii (with the intention of creating a protocol that alternates FSL and MRTrix). Any help would be very appreciated.