To cite TMB in publications use:

Kristensen K, Nielsen A, Berg CW, Skaug H, Bell BM (2016). “TMB: Automatic Differentiation and Laplace Approximation.” Journal of Statistical Software, 70(5), 1–21. doi:10.18637/jss.v070.i05.

Residuals computed with the oneStepPredict() function should cite:

Thygesen UH, Albertsen CM, Berg CW, Kristensen K, Nielsen A (2017). “Validation of ecological state space models using the Laplace approximation.” Environmental and Ecological Statistics, 1–23. doi:10.1007/s10651-017-0372-4.

Corresponding BibTeX entries:

    title = {{TMB}: Automatic Differentiation and {L}aplace
    author = {Kasper Kristensen and Anders Nielsen and Casper W. Berg
      and Hans Skaug and Bradley M. Bell},
    journal = {Journal of Statistical Software},
    year = {2016},
    volume = {70},
    number = {5},
    pages = {1--21},
    doi = {10.18637/jss.v070.i05},
    title = {Validation of ecological state space models using the
      {L}aplace approximation},
    author = {Uffe H. Thygesen and Christoffer M. Albertsen and Casper
      W. Berg and Kasper Kristensen and Anders Nielsen},
    journal = {Environmental and Ecological Statistics},
    year = {2017},
    pages = {1--23},
    doi = {10.1007/s10651-017-0372-4},