Entry: CIdata
Aliases: CIdata
Keywords: data
Description: Confidence-Interval for the Mean of the Poisson Distribution
URL: ../../../library/surveillance/html/CIdata.html

Entry: LRCUSUM.runlength
Aliases: LRCUSUM.runlength outcomeFunStandard LLR.fun
Keywords: regression
Description: Run length computation of a CUSUM detector
URL: ../../../library/surveillance/html/LRCUSUM.runlength.html

Entry: abattoir
Aliases: abattoir
Keywords: datasets
Description: Abattoir Data
URL: ../../../library/surveillance/html/abattoir.html

Entry: aggregate.disProg
Aliases: aggregate.disProg
Keywords: hplot
Description: Aggregate the observed counts
URL: ../../../library/surveillance/html/aggregate.disProg.html

Entry: algo.bayes
Aliases: algo.bayes algo.bayesLatestTimepoint algo.bayes1 algo.bayes2 algo.bayes3
Keywords: classif
Description: The Bayes System
URL: ../../../library/surveillance/html/algo.bayes.html

Entry: algo.call
Aliases: algo.call
Keywords: classif
Description: Query Transmission to Specified Surveillance Systems
URL: ../../../library/surveillance/html/algo.call.html

Entry: algo.cdc
Aliases: algo.cdcLatestTimepoint algo.cdc
Keywords: classif
Description: The CDC Algorithm
URL: ../../../library/surveillance/html/algo.cdc.html

Entry: algo.compare
Aliases: algo.compare
Keywords: classif
Description: Comparison of Specified Surveillance Systems using Quality Values
URL: ../../../library/surveillance/html/algo.compare.html

Entry: algo.cusum
Aliases: algo.cusum
Keywords: classif
Description: CUSUM method
URL: ../../../library/surveillance/html/algo.cusum.html

Entry: algo.farrington
Aliases: algo.farrington
Keywords: classif
Description: Surveillance for a time series using the Farrington procedure.
URL: ../../../library/surveillance/html/algo.farrington.html

Entry: algo.farrington.assign.weights
Aliases: algo.farrington.assign.weights
Keywords: regression
Description: Assign weights to base counts
URL: ../../../library/surveillance/html/algo.farrington.assign.weights.html

Entry: algo.farrington.fitGLM
Aliases: algo.farrington.fitGLM
Keywords: regression
Description: Fit the Poisson GLM of the Farrington procedure for a single time point
URL: ../../../library/surveillance/html/algo.farrington.fitGLM.html

Entry: algo.farrington.threshold
Aliases: algo.farrington.threshold
Keywords: regression
Description: Threshold computations using a two sided confidence interval
URL: ../../../library/surveillance/html/algo.farrington.threshold.html

Entry: algo.glrnb
Aliases: algo.glrnb
Keywords: classif
Description: Cound data regression charts
URL: ../../../library/surveillance/html/algo.glrnb.html

Entry: algo.glrpois
Aliases: algo.glrpois
Keywords: classif
Description: Poisson regression charts
URL: ../../../library/surveillance/html/algo.glrpois.html

Entry: algo.hhh
Aliases: algo.hhh print.ah coef.ah
Keywords: ts regression
Description: Model fit based on the Held, Hoehle, Hofman paper
URL: ../../../library/surveillance/html/algo.hhh.html

Entry: algo.hhh.grid
Aliases: algo.hhh.grid print.ahg coef.ahg
Keywords: misc
Description: Function to try multiple starting values
URL: ../../../library/surveillance/html/algo.hhh.grid.html

Entry: algo.hmm
Aliases: algo.hmm
Keywords: classif
Description: Hidden Markov Model (HMM) method
URL: ../../../library/surveillance/html/algo.hmm.html

Entry: algo.quality
Aliases: algo.quality
Keywords: misc
Description: Computation of Quality Values for a Surveillance System Result
URL: ../../../library/surveillance/html/algo.quality.html

Entry: algo.rki
Aliases: algo.rkiLatestTimepoint algo.rki algo.rki1 algo.rki2 algo.rki3
Keywords: classif
Description: The system used at the RKI
URL: ../../../library/surveillance/html/algo.rki.html

Entry: algo.rogerson
Aliases: algo.rogerson
Keywords: classif
Description: Modified CUSUM method as proposed by Rogerson and Yamada (2004)
URL: ../../../library/surveillance/html/algo.rogerson.html

Entry: algo.summary
Aliases: algo.summary
Keywords: print
Description: Summary Table Generation for Several Disease Chains
URL: ../../../library/surveillance/html/algo.summary.html

Entry: algo.twins
Aliases: algo.twins
Keywords: ts regression
Description: Model fit based on a two-component epidemic model
URL: ../../../library/surveillance/html/algo.twins.html

Entry: anscombe.residuals
Aliases: anscombe.residuals
Keywords: regression
Description: Compute Anscombe residuals
URL: ../../../library/surveillance/html/anscombe.residuals.html

Entry: arlCusum
Aliases: arlCusum
Keywords: models
Description: Calculation of Average Run Length for discrete CUSUM schemes
URL: ../../../library/surveillance/html/arlCusum.html

Entry: bestCombination
Aliases: bestCombination
Keywords: hplot
Description: Partition of a number into two factors
URL: ../../../library/surveillance/html/bestCombination.html

Entry: categoricalCUSUM
Aliases: categoricalCUSUM catcusum.LLRcompute
Keywords: regression
Description: CUSUM detector for time-varying categorical time series
URL: ../../../library/surveillance/html/categoricalCUSUM.html

Entry: compMatrix.writeTable
Aliases: compMatrix.writeTable
Keywords: print
Description: Latex Table Generation
URL: ../../../library/surveillance/html/compMatrix.writeTable.html

Entry: correct53to52
Aliases: correct53to52
Keywords: utilities
Description: Data Correction from 53 to 52 weeks
URL: ../../../library/surveillance/html/correct53to52.html

Entry: create.disProg
Aliases: create.disProg
Keywords: hplot
Description: Creating an object of class disProg
URL: ../../../library/surveillance/html/create.disProg.html

Entry: create.grid
Aliases: create.grid
Keywords: misc
Description: Computes a matrix of initial values
URL: ../../../library/surveillance/html/create.grid.html

Entry: deleval
Aliases: deleval
Keywords: datasets
Description: Surgical failures data
URL: ../../../library/surveillance/html/deleval.html

Entry: disProg2sts
Aliases: disProg2sts sts2disProg
Keywords: utilities
Description: Convert disProg object to sts and vice versa
URL: ../../../library/surveillance/html/disProg2sts.html

Entry: enlargeData
Aliases: enlargeData
Keywords: utilities
Description: Data Enlargement
URL: ../../../library/surveillance/html/enlargeData.html

Entry: estimateGLRNbHook
Aliases: estimateGLRNbHook
Keywords: regression
Description: Hook function for in-control mean estimation
URL: ../../../library/surveillance/html/estimateGLRNbHook.html

Entry: estimateGLRPoisHook
Aliases: estimateGLRPoisHook
Keywords: regression
Description: Hook function for in-control mean estimation
URL: ../../../library/surveillance/html/estimateGLRPoisHook.html

Entry: find.kh
Aliases: find.kh
Keywords: models
Description: Determine the k and h values in a standard normal setting
URL: ../../../library/surveillance/html/find.kh.html

Entry: findH
Aliases: findH hValues
Keywords: models
Description: Find decision interval for given in-control ARL and reference value
URL: ../../../library/surveillance/html/findH.html

Entry: findK
Aliases: findK
Keywords: models
Description: Find reference value
URL: ../../../library/surveillance/html/findK.html

Entry: ha
Aliases: ha
Keywords: datasets
Description: Hepatitis A in Berlin
URL: ../../../library/surveillance/html/ha.html

Entry: hepatitisA
Aliases: hepatitisA
Keywords: datasets
Description: Hepatitis A in Germany
URL: ../../../library/surveillance/html/hepatitisA.html

Entry: influMen
Aliases: influMen
Keywords: datasets
Description: Influenza and meningococcal infections in Germany, 2001-2006
URL: ../../../library/surveillance/html/influMen.html

Entry: surveillance-internal
Aliases: anscombeNB hypgeom2F1special hypGeomSmall add.legend fix.dimnames hcl.colors insert.zeroes wait init.sts merge.list addFormattedXAxis commonDenom logInterpolation getH getHK getTheta1 unpackParams gradient weightedSumNeighbours jacobian sinCos2amplitudeShift jacobianAmplitudeShift getLambda expAlpha.mm logLik.ah logLik.ahg make.nu make.pois pois.plot tms.plot summary,GridTopology-method summary,Spatial-method
Keywords: internal
Description: Internal surveillance Functions
URL: ../../../library/surveillance/html/internal.html

Entry: loglikelihood
Aliases: loglikelihood
Keywords: models
Description: Calculation of the loglikelihood needed in algo.hhh
URL: ../../../library/surveillance/html/loglikelihood.html

Entry: m1
Aliases: m1 h1_nrwrp k1 m2 m3 m4 m5 n1 n2 q1_nrwh q2 s1 s2 s3
Keywords: datasets
Description: RKI SurvStat Data
URL: ../../../library/surveillance/html/m1.html

Entry: magic.dim
Aliases: magic.dim
Keywords: hplot
Description: Returns a suitable k1 x k2 for plotting the disProgObj
URL: ../../../library/surveillance/html/magic.dim.html

Entry: make.design
Aliases: make.design
Keywords: misc
Description: Create the design matrices
URL: ../../../library/surveillance/html/make.design.html

Entry: makePlot
Aliases: makePlot
Keywords: misc
Description: Plot Generation
URL: ../../../library/surveillance/html/makePlot.html

Entry: meanResponse
Aliases: meanResponse
Keywords: models
Description: Calculate mean response needed in algo.hhh
URL: ../../../library/surveillance/html/meanResponse.html

Entry: measles.weser
Aliases: measles.weser
Keywords: datasets
Description: Measles epidemics in Lower Saxony in 2001-2002
URL: ../../../library/surveillance/html/measles.weser.html

Entry: meningo.age
Aliases: meningo.age
Keywords: datasets
Description: Meningococcal infections in France 1985-1995
URL: ../../../library/surveillance/html/meningo.age.html

Entry: momo
Aliases: momo
Keywords: datasets
Description: Danish 1994-2008 all cause mortality data for six age groups
URL: ../../../library/surveillance/html/momo.html

Entry: pairedbinCUSUM
Aliases: pairedbinCUSUM pairedbinCUSUM.runlength pairedbinCUSUM.LLRcompute
Keywords: regression
Description: Paired binary CUSUM and its run-length computation
URL: ../../../library/surveillance/html/pairedbinCUSUM.html

Entry: plot.atwins
Aliases: plot.atwins
Keywords: ts regression
Description: Plot results of a twins model fit
URL: ../../../library/surveillance/html/plot.atwins.html

Entry: plot.disProg
Aliases: plot.disProg plot.disProg.one
Keywords: hplot
Description: Plot Generation of the Observed and the defined Outbreak States of a (multivariate) time series
URL: ../../../library/surveillance/html/plot.disProg.html

Entry: plot.survRes
Aliases: plot.survRes plot.survRes.one
Keywords: hplot
Description: Plot a survRes object
URL: ../../../library/surveillance/html/plot.survRes.html

Entry: predict.ah
Aliases: predict.ah predict.ahg
Keywords: models
Description: Predictions from a HHH model
URL: ../../../library/surveillance/html/predict.ah.html

Entry: primeFactors
Aliases: primeFactors
Keywords: hplot
Description: Prime number factorization
URL: ../../../library/surveillance/html/primeFactors.html

Entry: print.algoQV
Aliases: print.algoQV
Keywords: print
Description: Print quality value object
URL: ../../../library/surveillance/html/print.algoQV.html

Entry: readData
Aliases: readData
Keywords: misc
Description: Reading of Disease Data
URL: ../../../library/surveillance/html/readData.html

Entry: refvalIdxByDate
Aliases: refvalIdxByDate
Keywords: regression
Description: Compute indices of reference value using Date class
URL: ../../../library/surveillance/html/refvalIdxByDate.html

Entry: residuals.ah
Aliases: residuals.ah residuals.ahg
Keywords: models
Description: Residuals from a HHH model
URL: ../../../library/surveillance/html/residuals.ah.html

Entry: salmonella.agona
Aliases: salmonella.agona
Keywords: datasets
Description: Salmonella Agona cases in the UK 1990-1995
URL: ../../../library/surveillance/html/salmonella.agona.html

Entry: shadar
Aliases: shadar
Keywords: datasets
Description: Salmonella Hadar cases in Germany 2001-2006
URL: ../../../library/surveillance/html/shadar.html

Entry: sim.pointSource
Aliases: sim.pointSource
Keywords: datagen
Description: Generation of Simulated Point Source Epidemy
URL: ../../../library/surveillance/html/sim.pointSource.html

Entry: sim.seasonalNoise
Aliases: sim.seasonalNoise
Keywords: datagen
Description: Generation of Background Noise for Simulated Timeseries
URL: ../../../library/surveillance/html/sim.seasonalNoise.html

Entry: simHHH
Aliases: simHHH simHHH.default simHHH.ah
Keywords: datagen
Description: Simulates data based on the model proposed by Held et. al (2005)
URL: ../../../library/surveillance/html/simHHH.html

Entry: stcd
Aliases: stcd
Keywords: cluster
Description: Spatio-temporal cluster detection
URL: ../../../library/surveillance/html/stcd.html

Entry: sts-class
Aliases: sts-class nrow,sts-method ncol,sts-method dim,sts-method alarms,sts-method alarms<-,sts-method upperbound,sts-method upperbound<-,sts-method control,sts-method control<-,sts-method epoch,sts-method epoch<-,sts-method epochInYear,sts-method observed,sts-method observed<-,sts-method population,sts-method population<-,sts-method colnames,sts,missing,missing-method initialize,sts-method as.data.frame,sts-method
Keywords: classes
Description: Class "sts" -- surveillance time series
URL: ../../../library/surveillance/html/sts-class.html

Entry: aggregate-methods
Aliases: aggregate,sts,ANY,ANY-method aggregate,sts-method
Keywords: methods
Description: Aggregate the the series of an sts object
URL: ../../../library/surveillance/html/stsAggregate.html

Entry: display-methods
Aliases: plot plot,sts,missing-method show,sts-method plot.sts.time plot.sts.time.one plot.sts.spacetime plot.sts.alarm
Keywords: ts
Description: Display Methods for Surveillance Time-Series Objects
URL: ../../../library/surveillance/html/stsDisp.html

Entry: obsinyear-methods
Aliases: obsinyear obsinyear-methods obsinyear,sts-method
Keywords: methods
Description: ~~ Methods for Function obsinyear ~~
URL: ../../../library/surveillance/html/stsObsInYear.html

Entry: observed-methods
Aliases: observed observed<- observed-methods alarms alarms<- upperbound upperbound<- alarms-methods control control<- control-methods epoch epoch<- epoch-methods epochInYear epochInYear<- epochInYear-methods population population<- population-methods
Keywords: methods
Description: Methods
URL: ../../../library/surveillance/html/stsSlots.html

Entry: [-methods
Aliases: [-methods [,sts-method [,sts,ANY,ANY,ANY-method
Keywords: methods array
Description: Methods for "[": Extraction or Subsetting in Package 'surveillance'
URL: ../../../library/surveillance/html/stsXtrct.html

Entry: year-methods
Aliases: year year-methods year,sts-method
Keywords: methods
Description: Methods for Function year
URL: ../../../library/surveillance/html/stsYear.html

Entry: sumNeighbours
Aliases: sumNeighbours
Keywords: hplot
Description: Calculates the sum of counts of adjacent areas
URL: ../../../library/surveillance/html/sumNeighbours.html

Entry: surveillance-package
Aliases: surveillance-package surveillance
Keywords: package
Description: Outbreak detection algorithms for surveillance data
URL: ../../../library/surveillance/html/surveillance-package.html

Entry: test
Aliases: test
Keywords: misc
Description: Print xtable for several diseases and the summary
URL: ../../../library/surveillance/html/test.html

Entry: testSim
Aliases: testSim
Keywords: misc
Description: Print xtable for a Simulated Disease and the Summary
URL: ../../../library/surveillance/html/testSim.html

Entry: toFileDisProg
Aliases: toFileDisProg
Keywords: file
Description: Writing of Disease Data
URL: ../../../library/surveillance/html/toFileDisProg.html

Entry: wrap.algo
Aliases: wrap.algo bayes cdc rki hmm cusum farrington glrpois glrnb rogerson
Keywords: classif
Description: Multivariate Surveillance through independent univariate algorithms
URL: ../../../library/surveillance/html/wrap.algo.html

Entry: xtable.algoQV
Aliases: xtable.algoQV
Keywords: print
Description: Xtable quality value object
URL: ../../../library/surveillance/html/xtable.algoQV.html
