Some guidelines for citing package ‘surveillance’ in publications:

The seminal paper introducing the hhh4() modeling framework:

Held L, Höhle M and Hofmann M (2005). “A statistical framework for the analysis of multivariate infectious disease surveillance counts.” Statistical Modelling, 5(3), pp. 187–199. ISSN 1471-082X, http://doi.org/10.1191/1471082X05st098oa.

For multivariate hhh4() models *without* random effects, cite:

Paul M, Held L and Toschke AM (2008). “Multivariate modelling of infectious disease surveillance data.” Statistics in Medicine, 27(29), pp. 6250–6267. ISSN 0277-6715, http://doi.org/10.1002/sim.3440.

For multivariate hhh4() models *with* random effects, cite:

Paul M and Held L (2011). “Predictive assessment of a non-linear random effects model for multivariate time series of infectious disease counts.” Statistics in Medicine, 30(10), pp. 1118–1136. ISSN 0277-6715, http://doi.org/10.1002/sim.4177.

For spatial power-law models with hhh4() or twinstim(), cite:

Meyer S and Held L (2014). “Power-law models for infectious disease spread.” The Annals of Applied Statistics, 8(3), pp. 1612–1639. ISSN 1932-6157, http://doi.org/10.1214/14-AOAS743.

If twinSIR() is used, cite:

Höhle M (2009). “Additive-multiplicative regression models for spatio-temporal epidemics.” Biometrical Journal, 51(6), pp. 961–978. ISSN 0323-3847, http://doi.org/10.1002/bimj.200900050.

If twinstim() is used, cite:

Meyer S, Elias J and Höhle M (2012). “A space-time conditional intensity model for invasive meningococcal disease occurrence.” Biometrics, 68(2), pp. 607–616. ISSN 0006-341X, http://doi.org/10.1111/j.1541-0420.2011.01684.x.

For many of the algo.* functions, the appropriate citation is:

Höhle M (2007). “surveillance: An R package for the monitoring of infectious diseases.” Computational Statistics, 22(4), pp. 571–582. http://doi.org/10.1007/s00180-007-0074-8.

If boda() is used, cite:

Manitz J and Höhle M (2013). “Bayesian outbreak detection algorithm for monitoring reported cases of campylobacteriosis in Germany.” Biometrical Journal, 55(4), pp. 509–526. ISSN 0323-3847, http://doi.org/10.1002/bimj.201200141.

For the nowcast()ing functionality, the appropriate citation is:

Höhle M and an der Heiden M (2014). “Bayesian Nowcasting during the STEC O104:H4 Outbreak in Germany, 2011.” Biometrics, 70(4), pp. 993–1002. http://doi.org/10.1111/biom.12194.

As a general software reference for the monitoring functionality, please cite:

Salmon M, Schumacher D and Höhle M (2016). “Monitoring Count Time Series in R: Aberration Detection in Public Health Surveillance.” Journal of Statistical Software. Forthcoming. Preprint available at http://arxiv.org/abs/1411.1292.

As a general reference for the spatio-temporal modeling frameworks, please cite:

Meyer S, Held L and Höhle M (2016). “Spatio-Temporal Analysis of Epidemic Phenomena Using the R Package surveillance.” Journal of Statistical Software. Forthcoming. Preprint available at http://arxiv.org/abs/1411.0416.

To cite the software package ‘surveillance’ itself, use:

Michael Höhle, Sebastian Meyer and Michaela Paul (2016). surveillance: Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena. R package version 1.11.0. http://CRAN.R-project.org/package=surveillance

In general, the references given in the help pages of the respective main functions should be used.

Corresponding BibTeX entries:

  @Article{,
    author = {Leonhard Held and Michael Höhle and Mathias Hofmann},
    title = {A statistical framework for the analysis of multivariate
      infectious disease surveillance counts},
    journal = {Statistical Modelling},
    issn = {1471-082X},
    year = {2005},
    volume = {5},
    number = {3},
    pages = {187--199},
    doi = {10.1191/1471082X05st098oa},
  }
  @Article{,
    author = {Michaela Paul and Leonhard Held and André Michael
      Toschke},
    title = {Multivariate modelling of infectious disease surveillance
      data},
    journal = {Statistics in Medicine},
    issn = {0277-6715},
    year = {2008},
    volume = {27},
    number = {29},
    pages = {6250--6267},
    doi = {10.1002/sim.3440},
  }
  @Article{,
    author = {Michaela Paul and Leonhard Held},
    title = {Predictive assessment of a non-linear random effects model
      for multivariate time series of infectious disease counts},
    journal = {Statistics in Medicine},
    issn = {0277-6715},
    year = {2011},
    volume = {30},
    number = {10},
    pages = {1118--1136},
    doi = {10.1002/sim.4177},
  }
  @Article{,
    author = {Sebastian Meyer and Leonhard Held},
    title = {Power-law models for infectious disease spread},
    journal = {The Annals of Applied Statistics},
    issn = {1932-6157},
    year = {2014},
    volume = {8},
    number = {3},
    pages = {1612--1639},
    doi = {10.1214/14-AOAS743},
  }
  @Article{,
    author = {Michael Höhle},
    title = {Additive-multiplicative regression models for
      spatio-temporal epidemics},
    journal = {Biometrical Journal},
    issn = {0323-3847},
    year = {2009},
    volume = {51},
    number = {6},
    pages = {961--978},
    doi = {10.1002/bimj.200900050},
  }
  @Article{,
    author = {Sebastian Meyer and Johannes Elias and Michael Höhle},
    title = {A space-time conditional intensity model for invasive
      meningococcal disease occurrence},
    journal = {Biometrics},
    issn = {0006-341X},
    year = {2012},
    volume = {68},
    number = {2},
    pages = {607--616},
    doi = {10.1111/j.1541-0420.2011.01684.x},
  }
  @Article{,
    title = {surveillance: An {R} package for the monitoring of
      infectious diseases},
    author = {Michael Höhle},
    journal = {Computational Statistics},
    year = {2007},
    volume = {22},
    number = {4},
    pages = {571--582},
    doi = {10.1007/s00180-007-0074-8},
  }
  @Article{,
    author = {Juliane Manitz and Michael Höhle},
    title = {Bayesian outbreak detection algorithm for monitoring
      reported cases of campylobacteriosis in Germany},
    journal = {Biometrical Journal},
    issn = {0323-3847},
    year = {2013},
    volume = {55},
    number = {4},
    pages = {509--526},
    doi = {10.1002/bimj.201200141},
  }
  @Article{,
    title = {Bayesian Nowcasting during the STEC O104:H4 Outbreak in
      Germany, 2011},
    author = {Michael Höhle and Matthias {an der Heiden}},
    journal = {Biometrics},
    year = {2014},
    volume = {70},
    number = {4},
    pages = {993--1002},
    doi = {10.1111/biom.12194},
  }
  @Article{,
    author = {Maëlle Salmon and Dirk Schumacher and Michael Höhle},
    title = {Monitoring Count Time Series in R: Aberration Detection in
      Public Health Surveillance},
    journal = {Journal of Statistical Software},
    year = {2016},
    note = {Forthcoming. Preprint available at
      \url{http://arxiv.org/abs/1411.1292}},
  }
  @Article{,
    author = {Sebastian Meyer and Leonhard Held and Michael Höhle},
    title = {Spatio-Temporal Analysis of Epidemic Phenomena Using the R
      Package surveillance},
    journal = {Journal of Statistical Software},
    year = {2016},
    note = {Forthcoming. Preprint available at
      \url{http://arxiv.org/abs/1411.0416}},
  }
  @Manual{R:surveillance,
    title = {surveillance: Temporal and Spatio-Temporal Modeling and
      Monitoring of Epidemic Phenomena},
    author = {Michael Höhle and Sebastian Meyer and Michaela Paul},
    year = {2016},
    note = {R package version 1.11.0},
    url = {http://CRAN.R-project.org/package=surveillance},
  }