When using the package, we would appreciate it if you would acknowledge your use of TreeSearch and (if you use it) MorphyLib in the article text, and cite Brazeau et al. (2017). For example, 'Phylogenetic search was performed using the R package TreeSearch v0.1.0, which uses MorphyLib to handle inapplicable data in accordance with Brazeau et al (2017)'. You might also wish to cite the individual software packages using their Zenodo dois.

Brazeau, Guillerme & Smith (2017). Morphological phylogenetic analysis with inapplicable data. BioRxiv,<doi:10.1101/209775>

Smith (2018). TreeSearch: phylogenetic tree search using custom optimality criteria.<doi:10.5281/zenodo.1042590>

Brazeau, Smith & Guillerme (2017). MorphyLib: a library for phylogenetic analysis of categorical trait data with inapplicability.<doi:10.5281/zenodo.815371>

Corresponding BibTeX entries:

  @Manual{,
    title = {Morphological phylogenetic analysis with inapplicable
      data},
    author = {Martin D. Brazeau and Thomas Guillerme and Martin R.
      Smith},
    year = {submitted},
    note = {R package version 0.1.2},
  }

  @Manual{,
    title = {TreeSearch: phylogenetic tree search using custom
      optimality criteria},
    author = {Martin R. Smith},
    year = {2018},
  }

  @Manual{,
    title = {MorphyLib: a library for phylogenetic analysis of
      categorical trait data with inapplicability},
    author = {Martin D. Brazeau and Martin R. Smith and Thomas
      Guillerme},
    year = {2017},
    note = {0.0.1-alpha},
  }