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Updated: Nov 10, 2025

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems
Published on: June 13, 2025
Classifier uncertainty: evidence, potential impact, and probabilistic treatment
Niklas Tötsch1, Daniel Hoffmann1
1Faculty of Biology, University of Duisburg-Essen, Essen, Germany.
Performance metrics for classifiers are often uncertain due to small datasets. Our method quantifies this uncertainty using confusion matrix models, revealing potentially misleading published results.
Area of Science:
- Machine Learning
- Statistical Modeling
- Data Science
Background:
- Classification models are frequently evaluated using performance metrics derived from limited data.
- Current practices often overlook the inherent uncertainty in these metrics, accepting them at face value.
Purpose of the Study:
- To introduce a novel approach for quantifying the uncertainty associated with classification performance metrics.
- To highlight the potential for misleading conclusions when classifier performance is not rigorously assessed for uncertainty.
Main Methods:
- Developed a probability model based on the confusion matrix to estimate performance metric uncertainty.
- The method is classifier-agnostic and requires only the confusion matrix as input.
Main Results:
- Application to real-world classifiers revealed surprisingly large uncertainties in performance metrics.
- These uncertainties can significantly limit the reliability of performance evaluations and may render some published results misleading.
- The approach was also effective for estimating required sample sizes for desired metric precision.
Conclusions:
- Quantifying uncertainty in classification performance metrics is crucial for reliable evaluation.
- The proposed confusion matrix-based probability model offers a simple yet powerful tool for assessing classifier reliability.
- This method can prevent the dissemination of potentially misleading classifier performance data and guide future research design.
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