To cite CellProgramMapper in publications use:

Liu Z (2026). CellProgramMapper: Map Single Cells to Reference Gene Expression Programs. R package version 1.0.0. https://github.com/Zaoqu-Liu/CellProgramMapper

Kotliar D, et al. (2025). Reproducible single-cell annotation of programs underlying T cell subsets, activation states and functions. Nature Methods.<doi:10.1038/s41592-025-02793-1>

Corresponding BibTeX entries:

  @Manual{,
    title = {CellProgramMapper: Map Single Cells to Reference Gene
      Expression Programs},
    author = {Zaoqu Liu},
    year = {2026},
    note = {R package version 1.0.0},
    url = {https://github.com/Zaoqu-Liu/CellProgramMapper},
  }

  @Article{,
    title = {Reproducible single-cell annotation of programs underlying
      T cell subsets, activation states and functions},
    author = {Dylan Kotliar and {et al.}},
    journal = {Nature Methods},
    year = {2025},
    doi = {10.1038/s41592-025-02793-1},
  }