TractoFlow-ABS (Atlas-Based Segmentation)

In Diffusion MRI (dMRI), pathological brains are a challenge for tractography processing, where most pipelines are not are not robust to white matter lesions. Intensity of white matter lesions on T1 images can have similar contrasts to gray matter tissue, which leads to misclassifications or "holes" in the white matter mask. These holes produce premature stop for tracking algorithms. To handle these issues, we developed TractoFlow-ABS (Atlas-Based Segmentation). TractoFlow-ABS uses the Freesurfer atlas to compute tissue masks instead of FSL fast in standard TractoFlow. TractoFlow-ABS is therefore a derived version of TractoFlow that is robust to white matter anomalies such as hyperintensities and lesions.