SET Documentation

Surface-enhanced tractography (SET) incorporate cortical surfaces in state-of-the-art diffusion MRI white matter reconstruction, i.e. Particle Filtering Tractography (PFT).

Note

St-Onge, E., Daducci, A., Girard, G. and Descoteaux, M., 2018. Surface-enhanced tractography (SET). NeuroImage, 169, pp.524-539. https://doi.org/10.1016/j.neuroimage.2017.12.036

Girard, G., Whittingstall, K., Deriche, R. and Descoteaux, M., 2014. Towards quantitative connectivity analysis: reducing tractography biases. Neuroimage, 98, pp.266-278. https://doi.org/10.1016/j.neuroimage.2014.04.074

Setup

• Setup with singularity
• Setup dev (without singularity)
• Setup on cluster
• Python

Usage

• Data Requirements
• SET with FreeSurfer
• SET with CIVET
• Usage for HCP

References

• References
• License