Code and Data for Annapragada et al. Science Translational Medicine, 2026, "Cell-free DNA fragmentomes for non-invasive detection of liver cirrhosis and other diseases"

Code and Data for Annapragada et al, Science Translational Medicine, 2026 "Cell-free DNA fragmentomes for non-invasive detection of liver cirrhosis and other diseases". This Zenodo serves as a static archive of the state of the following 3 github repositories on 01/12/2026:

A github repository for this manuscript, with code needed to reproduce manuscript figures: https://github.com/cancer-genomics/Annapragada2025

Code to generate repeat element and epigenetic features: https://github.com/cancer-genomics/artemis_pipeline.

Code to generate fragmentation features: https://github.com/cancer-genomics/delfi3.