To cite PhenotypeSimulator in publications use:

Meyer HV, Birney E (2018). “PhenotypeSimulator: A comprehensive framework for simulating multi-trait, multi-locus genotype to phenotype relationships.” Bioinformatics, 34(17), 2951–2956.

Corresponding BibTeX entry:

  @Article{,
    title = {PhenotypeSimulator: A comprehensive framework for
      simulating multi-trait, multi-locus genotype to phenotype
      relationships},
    author = {Hannah V Meyer and Ewan Birney},
    journal = {Bioinformatics},
    year = {2018},
    volume = {34},
    number = {17},
    pages = {2951--2956},
  }