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Implementing a Class of Permutation Tests: The coin Package

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  • Hothorn, Torsten
  • Hornik, Kurt
  • van de Wiel, Mark A.
  • Zeileis, Achim

Abstract

The R package coin implements a unified approach to permutation tests providing a huge class of independence tests for nominal, ordered, numeric, and censored data as well as multivariate data at mixed scales. Based on a rich and flexible conceptual framework that embeds different permutation test procedures into a common theory, a computational framework is established in coin that likewise embeds the corresponding R functionality in a common S4 class structure with associated generic functions. As a consequence, the computational tools in coin inherit the flexibility of the underlying theory and conditional inference functions for important special cases can be set up easily. Conditional versions of classical tests---such as tests for location and scale problems in two or more samples, independence in two- or three-way contingency tables, or association problems for censored, ordered categorical or multivariate data---can easily be implemented as special cases using this computational toolbox by choosing appropriate transformations of the observations. The paper gives a detailed exposition of both the internal structure of the package and the provided user interfaces along with examples on how to extend the implemented functionality.

Suggested Citation

  • Hothorn, Torsten & Hornik, Kurt & van de Wiel, Mark A. & Zeileis, Achim, 2008. "Implementing a Class of Permutation Tests: The coin Package," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 28(i08).
    • Handle: RePEc:jss:jstsof:v:028:i08
    DOI: http://hdl.handle.net/10.18637/jss.v028.i08
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    3. Maldonado, A.D. & Aguilera, P.A. & Salmerón, A. & Nicholson, A.E., 2018. "Probabilistic modeling of the relationship between socioeconomy and ecosystem services in cultural landscapes," Ecosystem Services, Elsevier, vol. 33(PB), pages 146-164.
    4. O'Sullivan, Kimberley C. & Stanley, James & Fougere, Geoffrey & Howden-Chapman, Philippa, 2016. "Heating practices and self-disconnection among electricity prepayment meter consumers in New Zealand: A follow-up survey," Utilities Policy, Elsevier, vol. 41(C), pages 139-147.
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    6. Harinder Singh & Sandeep Singh & Gajendra P S Raghava, 2014. "Evaluation of Protein Dihedral Angle Prediction Methods," PLOS ONE, Public Library of Science, vol. 9(8), pages 1-9, August.
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    9. McGinlay, James & Parsons, David J. & Morris, Joe & Hubatova, Marie & Graves, Anil & Bradbury, Richard B. & Bullock, James M., 2017. "Do charismatic species groups generate more cultural ecosystem service benefits?," Ecosystem Services, Elsevier, vol. 27(PA), pages 15-24.
    10. McGinlay, James & Parsons, David J. & Morris, Joe & Graves, Anil & Hubatova, Marie & Bradbury, Richard B. & Bullock, James M., 2018. "Leisure activities and social factors influence the generation of cultural ecosystem service benefits," Ecosystem Services, Elsevier, vol. 31(PC), pages 468-480.
    11. Achim Zeileis & Torsten Hothorn, 2013. "A toolbox of permutation tests for structural change," Statistical Papers, Springer, vol. 54(4), pages 931-954, November.

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