Estimating Classifier Uncertainty: Improved Confidence Intervals for LLMs.

Kylie Anglin· June 26, 2026 View original

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Summary

This paper evaluates confidence interval methods for classifier performance metrics, especially for small datasets, high performance, and nested data common in social science text classification using LLMs. It finds that default methods are inaccurate and recommends Agresti-Coull, Wilson, Clopper-Pearson, and a novel pseudo-count regularized bootstrap for better accuracy, along with adjustments for nested data.

Researchers often use text classifiers, including large language models, to quantify constructs from natural language, reporting metrics like recall and precision. However, measures of uncertainty, such as confidence intervals, are frequently omitted or calculated using inappropriate methods, especially with small datasets, high performance, or data nested within individuals. This paper rigorously evaluates various confidence interval methods under conditions typical for social science text classification. It reveals that standard approaches like the Wald interval and basic percentile bootstrap often yield inaccurate results, with coverage significantly below the nominal 95% level. The study recommends more accurate methods, including Agresti-Coull, Wilson, Clopper-Pearson, and introduces a novel pseudo-count regularized bootstrap, particularly useful for F1 score calculation. For nested data structures, it emphasizes the necessity of adjusting for effective sample size and degrees of freedom to produce reliable analytic intervals. This guidance aims to enhance the transparency and validity of machine learning applications by promoting better uncertainty reporting.

Why it matters

Accurately estimating uncertainty in classifier performance is crucial for the reliability and trustworthiness of AI applications, especially when using LLMs for critical tasks like social science research or clinical diagnostics. It ensures that reported metrics are not misleading.

How to implement this in your domain

  1. 1Adopt recommended confidence interval methods (Agresti-Coull, Wilson, Clopper-Pearson, pseudo-count regularized bootstrap) when reporting classifier performance.
  2. 2Implement hierarchical bootstrap or adjust for effective N and degrees of freedom when working with nested data structures.
  3. 3Prioritize validation sample size at the design stage to ensure sufficient data for robust uncertainty estimation.
  4. 4Integrate uncertainty reporting into standard machine learning evaluation pipelines for all text classification projects.
  5. 5Educate data scientists and researchers on the limitations of default confidence interval methods for small or high-performance datasets.

Who benefits

Social Science ResearchAI DevelopmentHealthcareMarket ResearchAcademia

Key takeaways

  • Default confidence interval methods are often inaccurate for classifier performance metrics.
  • Improved methods like Agresti-Coull, Wilson, and a novel bootstrap are recommended.
  • Nested data requires specific adjustments for accurate uncertainty estimation.
  • Accurate uncertainty reporting is vital for reliable AI applications and research.

Original post by Kylie Anglin

"arXiv:2606.26422v1 Announce Type: new Abstract: Researchers increasingly use text classification--supervised models or large language models--to measure constructs from natural language, providing metrics such as recall and precision as evidence of their validity. Yet, though the…"

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