Reproducible Tract Profiles (RTP2): from diffusion MRI acquisition to clinical practice and research

Summary Diffusion MRI is a complex technique, where new discoveries and implementations occur at a fast pace. The expertise needed for data analyses and accurate and reproducible results is increasingly demanding and requires multidisciplinary collaborations. In the present work we introduce Reproducible Tract Profiles (RTP2): a set of flexible and automated methods to analyze anatomical MRI and diffusion weighted imaging (DWI) data for reproducible tractography. The tools read structural MRI data and process them through a succession of serialized containerized analyses. We describe the DWI algorithms used to identify white-matter tracts and their summary metrics, the flexible architecture of the platform, and the tools to programmatically access and control the computations. The combination of these three components provides an easy-to-use automatized tool developed and tested over 20 years, to obtain usable and reliable state-of-the-art diffusion metrics at the individual and group levels for basic research and clinical practice. Highlights Automated, flexible and reproducible protocol for white-matter tractography and tractometry. High computational (same data, different computations) and test-retest reproducibility (data from different sessions, different computations). Open-source code and publicly available containers.