maftools can be cited as:

Mayakonda A, Lin DC, Assenov Y, Plass C, Koeffler HP. 2018. Maftools: efficient and comprehensive analysis of somatic variants in cancer. Genome Research. http://dx.doi.org/10.1101/gr.239244.118

Corresponding BibTeX entry:

  @Article{,
    title = {Maftools: efficient and comprehensive analysis of somatic
      variants in cancer.},
    author = {Anand Mayakonda and Dechen Lin and Yassen Assenov and
      Christoph Plass and Phillip H Koeffler},
    journal = {Genome Research},
    year = {2018},
    doi = {http://dx.doi.org/10.1101/gr.239244.118},
  }