To cite ANTsRNet in publications use:

Nicholas J. Tustison, Brian B. Avants, et al. (2018). Convolutional Neural Networks with Template-Based Data Augmentation for Functional Lung Image Quantification. Academic Radiology. URL https://www.ncbi.nlm.nih.gov/pubmed/30195415.

Corresponding BibTeX entry:

  @Article{,
    title = {Convolutional Neural Networks with Template-Based Data
      Augmentation for Functional Lung Image Quantification},
    author = {Nicholas J. Tustison and Zixuan Lin and Xue Feng and
      Nicholas Cullen and Jaime F. Mata and Lucia Flors and James C.
      Gee and Talissa A. Altes and John P. Mugler III and Kun Qing},
    journal = {Academic Radiology},
    year = {2018},
    url = {https://www.ncbi.nlm.nih.gov/pubmed/30195415},
  }