To cite package ‘WithinHostExperiment’ in publications use:

  Gao C (2026). _WithinHostExperiment: Within-Host Pathogen Variant QC,
  Diversity, and Bottleneck_. R package version 0.99.0,
  <https://github.com/cuiweig/withinhostexperiment>.

A BibTeX entry for LaTeX users is

  @Manual{,
    title = {WithinHostExperiment: Within-Host Pathogen Variant QC, Diversity, and Bottleneck},
    author = {Cuiwei Gao},
    year = {2026},
    note = {R package version 0.99.0},
    url = {https://github.com/cuiweig/withinhostexperiment},
  }