open access publication

Article, 2023

survex: an R package for explaining machine learning survival models

Bioinformatics, ISSN 1367-4803, 1367-4811, Volume 39, 12, 10.1093/bioinformatics/btad723

Contributors

Spytek M. [1] Krzyzinski M. [1] Langbein S.H. [2] [3] Baniecki H. [1] [4] Wright M.N. 0000-0002-8542-6291 [2] [3] [5] Biecek P. 0000-0001-8423-1823 (Corresponding author) [1] [4]

Affiliations

  1. [1] Warsaw University of Technology
  2. [NORA names: Poland; Europe, EU; OECD];
  3. [2] Leibniz Institute for Prevention Research and Epidemiology
  4. [NORA names: Germany; Europe, EU; OECD];
  5. [3] University of Bremen
  6. [NORA names: Germany; Europe, EU; OECD];
  7. [4] University of Warsaw
  8. [NORA names: Poland; Europe, EU; OECD];
  9. [5] University of Copenhagen
  10. [NORA names: KU University of Copenhagen; University; Denmark; Europe, EU; Nordic; OECD]

Abstract

Due to their flexibility and superior performance, machine learning models frequently complement and outperform traditional statistical survival models. However, their widespread adoption is hindered by a lack of user-friendly tools to explain their internal operations and prediction rationales. To tackle this issue, we introduce the survex R package, which provides a cohesive framework for explaining any survival model by applying explainable artificial intelligence techniques. The capabilities of the proposed software encompass understanding and diagnosing survival models, which can lead to their improvement. By revealing insights into the decision-making process, such as variable effects and importances, survex enables the assessment of model reliability and the detection of biases. Thus, transparency and responsibility may be promoted in sensitive areas, such as biomedical research and healthcare applications.

Funders

  • Narodowe Centrum Nauki
  • Narodowe Centrum BadaƄ i Rozwoju
  • Deutsche Forschungsgemeinschaft

Data Provider: Elsevier