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. 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. 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 1.12.0. 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 = {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 = {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 1.12.0}, url = {http://CRAN.R-project.org/package=surveillance}, }