To cite the 'RZooRoH' package and its model in publications, please use:

Forneris N, Faux P, Gautier M, Druet T (2026). “Updating the RZooRoH Package for the Analysis of Inbreeding, Identity-By-Descent and Relatedness From Genomic Data.” Molecular Ecology Resources, 26(6), e70186. doi:10.1111/1755-0998.70186.

Druet T, Gautier M (2022). “A hidden Markov model to estimate homozygous-by-descent probabilities associated with nested layers of ancestors.” Theoretical Population Biology, 145, 38-51. doi:10.1016/j.tpb.2022.03.001.

The ZooRoH model and its properties were first described in:

Druet T, Gautier M (2017). “A model-based approach to characterize individual inbreeding at both global and local genomic scales.” Molecular Ecology, 26(20), 5820-5841. doi:10.1111/mec.14324.

Extension to IBD and kinship analyses were first introduced in (see the RZooRoH update paper above for further details):

Forneris N, Bosse M, Gautier M, Druet T (2025). “Genomic Prediction of Individual Inbreeding Levels for the Management of Genetic Diversity in Populations With Small Effective Size.” Molecular Ecology Resources, 25(4), e14068. doi:10.1111/1755-0998.14068.

The previous RZooRoH package (prior to version 4) is described in:

Bertrand A, Kadri N, Flori L, Gautier M, Druet T (2019). “RZooRoH: an R package to characterize individual genomic autozygosity and identify homozygous-by-descent segments.” Methods in Ecology and Evolution, 10(6), 860-866. doi:10.1111/2041-210X.13167.

Corresponding BibTeX entries:

  @Article{,
    author = {Natalia S. Forneris and Pierre Faux and Mathieu Gautier
      and Tom Druet},
    title = {Updating the RZooRoH Package for the Analysis of
      Inbreeding, Identity-By-Descent and Relatedness From Genomic
      Data.},
    journal = {Molecular Ecology Resources},
    year = {2026},
    volume = {26},
    number = {6},
    pages = {e70186},
    doi = {10.1111/1755-0998.70186},
  }

  @Article{,
    author = {Tom Druet and Mathieu Gautier},
    title = {A hidden Markov model to estimate homozygous-by-descent
      probabilities associated with nested layers of ancestors.},
    journal = {Theoretical Population Biology},
    year = {2022},
    volume = {145},
    pages = {38-51},
    doi = {10.1016/j.tpb.2022.03.001},
  }

  @Article{,
    author = {Tom Druet and Mathieu Gautier},
    title = {A model-based approach to characterize individual
      inbreeding at both global and local genomic scales.},
    journal = {Molecular Ecology},
    year = {2017},
    volume = {26},
    number = {20},
    pages = {5820-5841},
    doi = {10.1111/mec.14324},
  }

  @Article{,
    author = {Natalia Soledad Forneris and Mirte Bosse and Mathieu
      Gautier and Tom Druet},
    title = {Genomic Prediction of Individual Inbreeding Levels for the
      Management of Genetic Diversity in Populations With Small
      Effective Size.},
    journal = {Molecular Ecology Resources},
    year = {2025},
    volume = {25},
    number = {4},
    pages = {e14068},
    doi = {10.1111/1755-0998.14068},
  }

  @Article{,
    author = {Amandine Bertrand and Naveen Kadri and Laurence Flori and
      Mathieu Gautier and Tom Druet},
    title = {RZooRoH: an R package to characterize individual genomic
      autozygosity and identify homozygous-by-descent segments.},
    journal = {Methods in Ecology and Evolution},
    year = {2019},
    volume = {10},
    number = {6},
    pages = {860-866},
    doi = {10.1111/2041-210X.13167},
  }