To cite the MAnorm2 package in publications, please use

Tu S, Li M, Chen H, Tan F, Xu J, Waxman DJ, Zhang Y, Shao Z (2021). “MAnorm2 for quantitatively comparing groups of ChIP-seq samples.” Genome Research, 31(1), 131-145. doi:10.1101/gr.262675.120.

If you have performed MA normalization with a pseudo-reference profile as baseline, or have employed a Winsorization-based robust parameter estimation framework, or have performed a hypervariable analysis, please cite additionally

Chen H, Tu S, Yuan C, Tian F, Zhang Y, Sun Y, Shao Z (2022). “HyperChIP: identification of hypervariable signals across ChIP-seq or ATAC-seq samples.” Genome Biology, 23(1), 62. doi:10.1186/s13059-022-02627-9.

Thanks for using MAnorm2.

Corresponding BibTeX entries:

  @Article{,
    title = {MAnorm2 for quantitatively comparing groups of ChIP-seq
      samples},
    author = {Shiqi Tu and Mushan Li and Haojie Chen and Fengxiang Tan
      and Jian Xu and David J. Waxman and Yijing Zhang and Zhen Shao},
    journal = {Genome Research},
    volume = {31},
    number = {1},
    pages = {131-145},
    year = {2021},
    publisher = {Cold Spring Harbor Laboratory Press},
    doi = {10.1101/gr.262675.120},
  }

  @Article{,
    title = {HyperChIP: identification of hypervariable signals across
      ChIP-seq or ATAC-seq samples},
    author = {Haojie Chen and Shiqi Tu and Chongze Yuan and Feng Tian
      and Yijing Zhang and Yihua Sun and Zhen Shao},
    journal = {Genome Biology},
    volume = {23},
    number = {1},
    pages = {62},
    year = {2022},
    doi = {10.1186/s13059-022-02627-9},
  }