Methodology for a fully automated pipeline of AI-based body composition tools for abdominal CT

Accurate, reproducible body composition analysis from abdominal computed tomography (CT) images is critical for both clinical research and patient care. We present a fully automated, artificial intelligence (AI)-based pipeline that streamlines the entire process-from data normalization and anatomical landmarking to automated tissue segmentation and quantitative biomarker extraction. Our methodology ensures standardized inputs and robust segmentation models to compute volumetric, density, and cross-sectional area metrics for a range of organs and tissues. Additionally, we capture selected DICOM header fields to enable downstream analysis of scan parameters and facilitate correction for acquisition-related variability. By emphasizing portability and compatibility across different scanner types, image protocols, and computational environments, we ensure broad applicability of our framework. This toolkit is the basis for the Opportunistic Screening Consortium in Abdominal Radiology (OSCAR) and has been shown to be robust and versatile, critical for large multi-center studies.