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XTRACT - Standardised protocols for automated tractography in the human and macaque brain

Warrington, S.; Bryant, K.L.; Khrapitchev, A.A.; Sallet, J.; Charquero-Ballester, M.; Douaud, G.; Jbabdi, S.; Mars, R.B.; Sotiropoulos, S.N.


S. Warrington

K.L. Bryant

A.A. Khrapitchev

J. Sallet

M. Charquero-Ballester

G. Douaud

S. Jbabdi

R.B. Mars


We present a new software package with a library of standardised tractography protocols devised for the robust automated extraction of white matter tracts both in the human and the macaque brain. Using in vivo data from the Human Connectome Project (HCP) and the UK Biobank and ex vivo data for the macaque brain datasets, we obtain white matter atlases, as well as atlases for tract endpoints on the white-grey matter boundary, for both species. We illustrate that our protocols are robust against data quality, generalisable across two species and reflect the known anatomy. We further demonstrate that they capture inter-subject variability by preserving tract lateralisation in humans and tract similarities stemming from twinship in the HCP cohort. Our results demonstrate that the presented toolbox will be useful for generating imaging-derived features in large cohorts, and in facilitating comparative neuroanatomy studies. The software, tractography protocols, and atlases are publicly released through FSL, allowing users to define their own tractography protocols in a standardised manner, further contributing to open science.


Warrington, S., Bryant, K., Khrapitchev, A., Sallet, J., Charquero-Ballester, M., Douaud, G., …Sotiropoulos, S. (2020). XTRACT - Standardised protocols for automated tractography in the human and macaque brain. NeuroImage, 217,

Journal Article Type Article
Acceptance Date May 1, 2020
Online Publication Date May 11, 2020
Publication Date Aug 15, 2020
Deposit Date May 12, 2020
Publicly Available Date May 12, 2020
Journal NeuroImage
Print ISSN 1053-8119
Electronic ISSN 1095-9572
Publisher Elsevier
Peer Reviewed Peer Reviewed
Volume 217
Article Number 116923
Keywords Cognitive Neuroscience; Neurology
Public URL
Publisher URL


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