In medical image segmentation, uncertainty estimates are often reported but rarely used to guide decisions. We study the missing step: how uncertainty maps are converted into actionable policies such as accepting, flagging, or deferring predictions. We formulate segmentation as a two-stage pipeline, estimation followed by decision, and show that optimizing uncertainty alone fails to capture most of the achievable safety gains. Using retinal vessel segmentation benchmarks (DRIVE, STARE, CHASE_DB1), we evaluate two uncertainty sources (Monte Carlo Dropout and Test-Time Augmentation) combined with three deferral strategies, and introduce a simple confidence-aware deferral rule that prioritizes uncertain and low-confidence predictions. Our results show that the best method and policy combination removes up to 80 percent of segmentation errors at only 25 percent pixel deferral, while achieving strong cross-dataset robustness. We further show that calibration improvements do not translate to better decision quality, highlighting a disconnect between standard uncertainty metrics and real-world utility. These findings suggest that uncertainty should be evaluated based on the decisions it enables, rather than in isolation.
@article{arxiv.2604.13262,
title = {Rethinking Uncertainty in Segmentation: From Estimation to Decision},
author = {Saket Maganti},
journal= {arXiv preprint arXiv:2604.13262},
year = {2026}
}