Processing steps
TractoFlow pipeline consist of 23 different steps : 14 steps for the diffusion weighted image (DWI) processing and 8 steps for the T1 weighted image processing.

Input
Diffusion weighted image (DWI)
b-values
b-vectors
T1 weighted image
Reverse phase encoding B0 (Optional)
DWI processes
Brain extraction (FSL)
Denoising (Mrtrix3)
Topup (FSL)
Eddy (FSL)
N4 bias correction (ANTs)
Resample (Dipy)
DTI metrics (Dipy)
fODF metrics (Dipy)
T1 processes
Brain extraction (ANTs)
Denoising (Dipy)
N4 bias correction (ANTs)
Resample (Dipy)
Registration (ANTs)
Tissue segmentation (FSL)
Tractography
Particule Filter Tractography
Local tracking (Optional)
The particle filter tractography is performed by default. Three types of seeding are available: WM-GM interface, WM mask or FA.