To cite qtl2pleio in publications use:

Boehm FJ, Chesler EJ, Yandell BS, Broman KW (2019). “Testing pleiotropy vs. separate QTL in multiparental populations.” G3, 9. https://www.g3journal.org/content/ggg/9/7/2317.full.pdf, https://www.g3journal.org/content/9/7/2317.

Corresponding BibTeX entry:

  @Article{Boehm2019testing,
    title = {Testing pleiotropy vs. separate QTL in multiparental
      populations},
    author = {Frederick J. Boehm and Elissa J. Chesler and Brian S.
      Yandell and Karl W. Broman},
    journal = {G3},
    year = {2019},
    volume = {9},
    issue = {7},
    url = {https://www.g3journal.org/content/9/7/2317},
    eprint = {https://www.g3journal.org/content/ggg/9/7/2317.full.pdf},
  }