To cite yuima in publications use:

Alexandre Brouste, Masaaki Fukasawa, Hideitsu Hino, Stefano M. Iacus, Kengo Kamatani, Yuta Koike, Hiroki Masuda, Ryosuke Nomura, Teppei Ogihara, Yasutaka Shimuzu, Masayuki Uchida, Nakahiro Yoshida (2014). The YUIMA Project: A Computational Framework for Simulation and Inference of Stochastic Differential Equations. Journal of Statistical Software, 57(4), 1-51. URL http://www.jstatsoft.org/v57/i04/.

Corresponding BibTeX entry:

  @Article{,
    title = {The YUIMA Project: A Computational Framework for
      Simulation and Inference of Stochastic Differential Equations},
    author = {Alexandre Brouste and Masaaki Fukasawa and Hideitsu Hino
      and Stefano M. Iacus and Kengo Kamatani and Yuta Koike and Hiroki
      Masuda and Ryosuke Nomura and Teppei Ogihara and Yasutaka Shimuzu
      and Masayuki Uchida and Nakahiro Yoshida},
    journal = {Journal of Statistical Software},
    year = {2014},
    volume = {57},
    number = {4},
    pages = {1--51},
    url = {http://www.jstatsoft.org/v57/i04/},
  }