To cite ss3sim in publications use:

Johnson KF, Anderson SC, Doering K, Monnahan CC, Stawitz CC, Taylor IG (2019). ss3sim: Fisheries Stock Assessment Simulation Testing with Stock Synthesis. R package version 1.0.3.

Anderson SC, Monnahan CC, Johnson KF, Ono K, Valero JL (2014). “ss3sim: An R package for fisheries stock assessment simulation with Stock Synthesis.” PLOS ONE, 9(4), e92725. doi:10.1371/journal.pone.0092725.

Corresponding BibTeX entries:

  @Manual{,
    title = {ss3sim: Fisheries Stock Assessment Simulation Testing with
      Stock Synthesis},
    author = {Kelli F. Johnson and Sean C. Anderson and Kathryn Doering
      and Cole C. Monnahan and Christine C. Stawitz and Ian G. Taylor},
    year = {2019},
    note = {R package version 1.0.3},
  }

  @Article{,
    title = {ss3sim: An {R} package for fisheries stock assessment
      simulation with {Stock Synthesis}},
    author = {Sean C. Anderson and Cole C. Monnahan and Kelli F.
      Johnson and Kotaro Ono and Juan L. Valero},
    year = {2014},
    journal = {PLOS ONE},
    volume = {9},
    number = {4},
    pages = {e92725},
    doi = {10.1371/journal.pone.0092725},
  }