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.

A BibTeX entry for LaTeX users is

  @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},
  }