• Bailey, L.L., MacKenzie, D.I. & Nichols, J.D. (2013) Advances and applications of occupancy models. Methods in Ecology and Evolution. doi: 10.1111/2041-210X.12100.
  • Choquet, R. (2008) Automatic generation of multistate capture recapture models. The Canadian Journal of Statistics, 36, 4357.
  • Choquet, R. & Cole, D.J. (2012) A hybrid symbolic-numerical method for determining model structure. Mathematical Biosciences, 236, 117125.
  • Choquet, R. & Gimenez, O. (2012) Towards built-in capture-recapture mixed models in program E-SURGE. Journal of Ornithology, 152, 625639.
  • Choquet, R. & Nogué, E. (2013) E-SURGE 1.8 User's Manual. Montpellier. Available from
  • Choquet, R., Rouan, L. & Pradel, R. (2009) Program E - SURGE: a Software Application for Fitting Multievent Models. Environmental and Ecological Statistics (eds D.L. Thomson, E.G. Cooch & M.J. Conroy), pp. 845865. Springer US, New York.
  • Choquet, R., Sanz-Aguilar, A., Doligez, B., Nogué, E., Pradel, R., Gustafsson, L. & Gimenez, O. (2013) Estimating Demographic Parameters in the Wild with Dependence among Individuals within Cluster. Methods in Ecology and Evolution, 4, 474482.
  • Fiske, I.J. & Chandler, R.B. (2011) Unmarked : an R Package for Fitting Hierarchical Models of Wildlife Occurrence and Abundance. Journal Of Statistical Software, 43, 123.
  • Fiske, I.J., Royle, J.A. & Gross, K. (2013) Inference for finite-sample trajectories in dynamic multi-state site-occupancy models using hidden Markov model smoothing. Environmental and Ecological Statistics. doi:10.1007/s10651-013-0256-1.
  • Fréville, H., Choquet, R., Pradel, R. & Cheptou, P.-O. (2013) Inferring seed bank from hidden Markov models: new insights into metapopulation dynamics in plants. Journal of Ecology, 101, 15721580.
  • Gimenez, O. & Choquet, R. (2010) Incorporating individual heterogeneity in studies on marked animals using numerical integration: capture-recapture mixed models. Ecology, 91, 951957.
  • Gimenez, O., Lebreton, J.-D., Gaillard, J.-M., Choquet, R. & Pradel, R. (2012) Estimating demographic parameters using hidden process dynamic models. Theoretical Population Biology, 82, 307316.
  • Hines, J.E. (2013) PRESENCE 5.9 – Software to estimate patch occupancy and related parameters.
  • Kéry, M. & Schaub, M. (2012) Bayesian Population Analysis Using WinBUGS: A Hierarchical Perspective. Academic Press, Oxford, UK.
  • MacKenzie, D.I., Bailey, L.L. & Nichols, J.D. (2004) Investigating species co-occurrence patterns when species are detected imperfectly. Journal of Animal Ecology, 73, 546555.
  • MacKenzie, D.I., Nichols, J.D., Royle, J.A., Pollock, K.H., Bailey, L.L. & Hines, J.E. (2006) Occupancy Estimation and Modeling: Inferring Patterns and Dynamics of Species Occurrence. Academic Press, Oxford, UK.
  • MacKenzie, D.I., Nichols, J.D., Seamans, M.E. & Gutiérrez, R.J. (2009) Modeling species occurrence dynamics with multiple states and imperfect detection. Ecology, 90, 823835.
  • Nichols, J.D., Hines, A.J.E., Mackenzie, D.I., Seamans, M.E. & Gutiérrez, R.J. (2007) Occupancy estimation and modeling with multiple states and state uncertainty. Ecology, 88, 13951400.
  • Pollock, K.H. (1982) A capture-recapture design robust to unequal probability of capture. The Journal of Wildlife Management, 46, 752757.
  • Pradel, R. (2005) Multievent: an extension of multistate capture-recapture models to uncertain states. Biometrics, 61, 442447.
  • Rolland, J., Basille, M., Marboutin, E. & Gaillard, J.-M. (2011) Comparing profile methods and site-occupancy modelling for the study of occurrence of an elusive species. European Journal of Wildlife Research, 57, 11151118.
  • Rouan, L., Gaillard, J.-M., Guédon, Y. & Pradel, R. (2009) Estimation of lifetime reproductive success when reproductive status cannot always be assessed. Modeling Demographic Processes in Marked Populations (eds D.L. Thomson, E.G. Cooch & M.J. Conroy), pp. 867879. Springer, Berlin, Germany.
  • Royle, J.A. (2006) Site occupancy models with heterogeneous detection probabilities. Biometrics, 62, 97102.
  • Royle, J.A. & Kéry, M. (2007) A Bayesian state-space formulation of dynamic occupancy models. Ecology, 88, 18131823.
  • Waddle, J.H., Dorazio, R.M., Walls, S.C., Rice, K.G., Beauchamp, J., Schuman, M.J. & Mazzotti, F.J. (2010) A new parameterization for estimating co-occurrence of interacting species. Ecological Applications, 20, 14671475.
  • White, G.C. & Burnham, K.P. (1999) Program MARK: survival estimation from populations of marked animals. Bird Study, 46, 120139.