API for dirkschumacher/surveillance-fork
Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena

Global functions
AIC.hhh4 Man page Source code
AIC.twinSIR Man page Source code
LLR.fun Man page Source code
LRCUSUM.runlength Man page Source code
Lambda Source code
MMRcoverageDE Man page
OSAICpenalty Source code
R0 Man page Source code
R0.simEpidataCS Man page Source code
R0.twinstim Man page Source code
RPS Man page Source code
W.powerlaw Man page Source code
Ztilde.chibarsq Source code
[,sts,ANY,ANY,ANY-method Man page
[,sts,index,missing,missing-method Man page
[,sts,missing,index,missing-method Man page
[,sts,missing,missing,ANY-method Man page
[,sts-method Man page
[.epidata Man page
[.epidataCS Man page
abattoir Man page
add.legend Source code
add1.twinstim Man page
addFormattedXAxis Source code
addSeason2formula Man page Source code
aggregate,sts,ANY,ANY-method Man page
aggregate,sts-method Man page
aggregate,stsBP-method Man page
aggregate.disProg Man page Source code
alarms Man page
alarms,sts-method Man page
alarms,stsBP-method Man page
alarms<- Man page
alarms<-,sts-method Man page
alarms<-,stsBP-method Man page
algo.bayes Man page Source code
algo.bayes1 Man page Source code
algo.bayes2 Man page Source code
algo.bayes3 Man page Source code
algo.bayesLatestTimepoint Man page Source code
algo.call Man page Source code
algo.cdc Man page Source code
algo.cdcLatestTimepoint Man page Source code
algo.compare Man page Source code
algo.cusum Man page Source code
algo.farrington Man page Source code
algo.farrington.assign.weights Man page Source code
algo.farrington.data.glm Source code
algo.farrington.fitGLM Man page Source code
algo.farrington.fitGLM.fast Man page Source code
algo.farrington.fitGLM.flexible Source code
algo.farrington.fitGLM.populationOffset Man page Source code
algo.farrington.glm Source code
algo.farrington.referencetimepoints Source code
algo.farrington.threshold Man page Source code
algo.farrington.threshold.farrington Source code
algo.farrington.threshold.noufaily Source code
algo.glrnb Man page Source code
algo.glrpois Man page Source code
algo.hhh Man page Source code
algo.hhh.grid Man page Source code
algo.hmm Man page Source code
algo.outbreakP Man page Source code
algo.quality Man page Source code
algo.rki Man page Source code
algo.rki1 Man page Source code
algo.rki2 Man page Source code
algo.rki3 Man page Source code
algo.rkiLatestTimepoint Man page Source code
algo.rogerson Man page Source code
algo.summary Man page Source code
algo.twins Man page Source code
amplitudeShift2sinCos Source code
animate Man page Source code
animate.epidata Man page Source code
animate.epidataCS Man page Source code
animate.summary.epidata Man page Source code
anscombe.residuals Man page Source code Source code
anscombeNB Source code
arlCusum Man page Source code
as.data.frame,sts-method Man page
as.data.frame,stsBP-method Man page
as.epidata Man page Source code
as.epidata.default Man page Source code
as.epidata.epidataCS Man page Source code
as.epidataCS Man page Source code
as.twinstim.simEpidataCS Source code
backprojNP Man page Source code
backprojNP.fit Man page Source code
bayes Man page Source code
bdist Source code
bestCombination Man page Source code
blocks Source code
bw Man page
calc.outbreakP.statistic Man page Source code
catcusum.LLRcompute Man page Source code
categoricalCUSUM Man page Source code
checkAnalyticals Source code
checkCoefs Source code
checkDerivatives.maxLik Source code
checkDerivatives.numDeriv Source code
checkEvents Source code
checkFormula Source code
checkNeighbourhood Source code
checkParBounds Source code
checkQ Source code
checkResidualProcess Man page Source code
checkWeights Source code
checkWeightsArray Source code
checkWeightsFUN Source code
checknargs3 Source code
checksiaf Source code
checksiaf.Deriv Source code
checksiaf.F Source code
checksiaf.Fcircle Source code
checksiaf.deriv Source code
checksiaf.simulate Source code
checkstgrid Source code
clapply Source code
coef.ah Man page Source code
coef.ahg Man page Source code
coef.hhh4 Man page Source code
coef.summary.twinstim Source code
coefW Source code
coeflist Source code
coerce,sts,stsBP-method Man page
coerce,sts,ts-method Man page
colnames,sts,missing,missing-method Man page
colnames,stsBP,missing,missing-method Man page
commonDenom Source code
compMatrix.writeTable Man page Source code
componentsHHH4 Source code
confint.hhh4 Man page Source code
control Man page
control,sts-method Man page
control,stsBP-method Man page
control2nlminb Source code
control<- Man page
control<-,sts-method Man page
control<-,stsBP-method Man page
correct53to52 Man page Source code
cox Man page Source code
create.disProg Man page Source code
create.grid Man page Source code
crudebeta0 Source code
cusum Man page Source code
d2Sigma1 Source code
d2Sigma2 Source code
d2Sigma3 Source code
dSigma1 Source code
dSigma2 Source code
dSigma3 Source code
defaultOptimControl Source code
deleval Man page
determineSources Source code
determineSources.epidataCS Source code
diameter.gpc.poly Source code
dim,sts-method Man page
dim,stsBP-method Man page
disProg2sts Man page Source code
discpoly Man page Source code
dist.median Man page Source code
drop1.twinstim Man page
dss Source code
earsC Man page Source code
eh Source code
em.step.becker Man page Source code
enlargeData Man page Source code
epidata Man page
epidataCS Man page
epidataCS2sts Man page Source code
epoch Man page
epoch,sts-method Man page
epoch,stsBP-method Man page
epoch<- Man page
epoch<-,sts-method Man page
epoch<-,stsBP-method Man page
epochInYear Man page
epochInYear,sts-method Man page
epochInYear,stsBP-method Man page
estimateGLRNbHook Man page Source code
estimateGLRPoisHook Man page Source code
expAlpha.mm Source code
extractAIC.twinSIR Man page Source code
extractAIC.twinstim Source code
farrington Man page Source code
farringtonFlexible Man page Source code
fe Man page Source code
find.kh Man page Source code
findH Man page Source code
findK Man page Source code
fisherinfo Source code
fitHHH Source code
fix.dimnames Source code
fixef Man page Source code
fixef.hhh4 Man page Source code
fluBYBW Man page
foodata Man page
fooepidata Man page
foofit Man page
formatDate Source code
formatPval Man page Source code
formulaGLM Source code
get.surveillance.options Source code
getCov Source code
getH Source code
getHK Source code
getLambda Source code
getMaxEV_season Man page Source code
getModel Source code
getModel.simEpidata Source code
getModel.twinSIR Source code
getNEweights Source code
getRelDiff Source code
getSdCorr Source code
getSeason Source code
getSeasonStart Source code
getSigma Source code
getSigmaInv Source code
getSigmai Source code
getSigmaiInv Source code
getSourceDists Source code
getSummary Source code
getTheta1 Source code
glm.epidataCS Source code
glrnb Man page Source code
glrpois Man page Source code
gpclibCheck Source code
gradient Source code
gridcellOfEvent Source code
h1_nrwrp Man page
hValues Man page Source code
ha Man page
ha.sts Man page
hagelloch Man page
hagelloch.df Man page
hcl.colors Source code
head.epidataCS Man page Source code
hepatitisA Man page
hhh4 Man page Source code
hhh4coef2start Source code
hmm Man page Source code
hypgeom2F1special Source code
iafplot Man page Source code
imdepi Man page
imdepifit Man page
influMen Man page
init.sts Source code
init.stsBP Source code
initialize,sts-method Man page
initialize,stsBP-method Man page
insert.zeroes Source code
inside.gpc.poly Man page Source code
intensity.twinstim Man page Source code
intensityplot Man page Source code
intensityplot.simEpidata Man page Source code
intensityplot.simEpidataCS Man page Source code
intensityplot.twinSIR Man page Source code
intensityplot.twinstim Man page Source code
intensityplot_twinSIR Source code
interpretControl Source code
intersectPolyCircle Man page Source code
intersectPolyCircle.SpatialPolygons Man page Source code
intersectPolyCircle.gpc.poly Man page Source code
intersectPolyCircle.owin Man page Source code
intersperse Man page Source code
intrfr.student Source code
intrfr.student.dlogd Source code
intrfr.student.dlogsigma Source code
is.listcall Source code
isInModel Source code
isScalar Man page Source code
isoWeekYear Man page Source code
jacobian Source code
jacobianAmplitudeShift Source code
k1 Man page
ks.plot.unif Man page Source code
likelihood.ci Source code
linelist2sts Man page Source code
lmarg.lambda Source code
logInterpolation Source code
logLik.ah Source code
logLik.ahg Source code
logLik.hhh4 Man page Source code
logLik.twinSIR Man page Source code
logLik.twinstim Man page Source code
logS Man page Source code
logScore Source code
loglik Source code
loglikelihood Man page Source code
m1 Man page
m2 Man page
m3 Man page
m4 Man page
m5 Man page
magic.dim Man page Source code
make.design Man page Source code
make.nu Source code
make.pois Source code
makePlot Man page Source code
mapplyCall Source code
mapplyFUN Source code
marFisher Source code
marLogLik Source code
marScore Source code
marks Man page
marks.epidataCS Man page Source code
meanHHH Source code
meanResponse Man page Source code
measles.weser Man page
measlesDE Man page
measlesWeserEms Man page
meningo.age Man page
merge.list Source code
modifyListcall Source code
momo Man page
multinomialTS Man page
multinomialTS,sts-method Man page
multinomialTS,stsBP-method Man page
multinomialTS<- Man page
multinomialTS<-,sts-method Man page
multinomialTS<-,stsBP-method Man page
multiplicity Man page Source code
multiplicity.Spatial Man page Source code
multiplicity.default Man page Source code
mycoeflist Source code
n1 Man page
n2 Man page
na2FALSE Source code
naninf2zero Man page Source code
nbOrder Man page Source code
ncol,sts-method Man page
ncol,stsBP-method Man page
neOffsetFUN Source code
neighbourhood Man page
neighbourhood,sts-method Man page
neighbourhood,stsBP-method Man page
neighbourhood<- Man page
neighbourhood<-,sts-method Man page
neighbourhood<-,stsBP-method Man page
newtonRaphson Source code
nfluenceRegions Source code
nobs.epidataCS Man page Source code
nobs.twinstim Man page Source code
nowcast Man page Source code
nowcast.fit Man page
nrow,sts-method Man page
nrow,stsBP-method Man page
nses Source code
observed Man page
observed,sts-method Man page
observed,stsBP-method Man page
observed<- Man page
observed<-,sts-method Man page
observed<-,stsBP-method Man page
onAttach Source code
onLoad Source code
oneStepAhead Man page Source code
outbreakP Man page Source code
outcomeFunStandard Man page Source code
outside.ci Man page Source code
pairedbinCUSUM Man page Source code
pairedbinCUSUM.LLRcompute Man page Source code
pairedbinCUSUM.runlength Man page Source code
parseiaf Source code
penFisher Source code
penLogLik Source code
penScore Source code
permutationTest Source code
pfisherinfo Source code
pit Source code
pit1 Source code
pitPxPxm1 Source code
pitplot Source code
ploglik Source code
plot,sts,missing-method Man page
plot,stsBP,missing-method Man page
plot,stsBP-method Man page
plot.atwins Man page Source code
plot.disProg Man page Source code
plot.disProg.one Man page Source code
plot.epidata Man page Source code
plot.epidataCS Man page Source code
plot.epidataCS_space Source code
plot.epidataCS_time Source code
plot.hhh4 Man page Source code
plot.simEpidataCSlist Source code
plot.sts.alarm Man page Source code
plot.sts.spacetime Man page Source code
plot.sts.time Man page Source code
plot.sts.time.one Man page Source code
plot.summary.epidata Man page Source code
plot.survRes Man page Source code Source code
plot.survRes.one Man page Source code
plot.twinSIR Man page Source code
plot.twinstim Man page Source code
plotHHH4_fitted Man page Source code
plotHHH4_fitted1 Man page Source code
plotHHH4_ri Man page Source code
plotHHH4_season Man page Source code
pois.plot Source code
poly2adjmat Man page Source code
polyAtBorder Man page Source code
population Man page
population,sts-method Man page
population,stsBP-method Man page
population<- Man page
population<-,sts-method Man page
population<-,stsBP-method Man page
predict.ah Man page Source code
predict.ahg Man page Source code
predict.hhh4 Man page Source code
primeFactors Man page Source code
print Man page
print,sts-method Man page
print.ah Man page Source code
print.ahg Man page Source code
print.algoQV Man page Source code
print.disProg Man page Source code
print.epidata Man page Source code
print.epidataCS Man page Source code
print.hhh4 Man page Source code
print.simEpidataCSlist Source code
print.summary.epidata Man page Source code
print.summary.epidataCS Man page Source code
print.summary.hhh4 Man page Source code
print.summary.twinSIR Man page Source code
print.summary.twinstim Man page Source code
print.twinSIR Man page Source code
print.twinstim Man page Source code
profile.twinSIR Man page Source code
profile.twinstim Man page Source code
pscore Source code
q1_nrwh Man page
q2 Man page
qlomax Man page Source code
ranef Man page Source code
ranef.hhh4 Man page Source code
read.design Source code
readData Man page Source code
refvalIdxByDate Man page Source code
reset.surveillance.options Man page Source code
residuals.ah Man page Source code
residuals.ahg Man page Source code
residuals.hhh4 Man page Source code
residuals.twinSIR Man page Source code
residuals.twinstim Man page Source code
ri Man page Source code
rki Man page Source code
rogerson Man page Source code
rps Source code
rps.one Source code
runifdisc Man page Source code
s1 Man page
s2 Man page
s3 Man page
salmonella.agona Man page
scale.gpc.poly Man page Source code
score Source code
scores Man page Source code
ses Source code
setControl Source code
setOptimControl Source code
shadar Man page
show,sts-method Man page
siaf Man page Source code
siaf.constant Man page Source code
siaf.fallback.Deriv Source code
siaf.fallback.F Source code
siaf.gaussian Man page Source code
siaf.powerlaw Man page Source code
siaf.powerlawL Man page Source code
siaf.step Source code
siaf.student Man page Source code
siafIntFUN Source code
sim.pointSource Man page Source code
sim.seasonalNoise Man page Source code
simEpidata Man page Source code
simEpidataCS Man page Source code
simHHH Man page Source code
simHHH.ah Man page Source code
simHHH.default Man page Source code
simHHH4 Source code
simulate.hhh4 Man page Source code
simulate.twinSIR Man page Source code
simulate.twinstim Man page Source code
sinCos2amplitudeShift Source code
splitParams Source code
sqrtOf1pr2 Source code
stateplot Man page Source code
stcd Man page Source code
step2twinstim Source code
stepComponent Man page Source code
sts-class Man page
sts2disProg Man page Source code
stsBP-class Man page
subset.epidataCS Man page Source code
sumNeighbours Man page Source code
summary.epidata Man page Source code
summary.epidataCS Man page Source code
summary.hhh4 Man page Source code
summary.twinSIR Man page Source code
summary.twinstim Man page Source code
surveillance Man page
surveillance-package Man page
surveillance.options Man page Source code
tail.epidataCS Man page Source code
terms.hhh4 Man page Source code
terms.twinstim Source code
test Man page Source code
testSim Man page Source code
tiaf Man page Source code
tiaf.constant Man page Source code
tiaf.exponential Man page Source code
tiafIntFUN Source code
tms.plot Source code
toFileDisProg Man page Source code
toLatex.summary.twinstim Man page Source code
tooClose Source code
twinSIR Man page Source code
twinstim Man page Source code
unionSpatialPolygons Man page Source code
unpackParams Source code
untie Man page Source code Source code
untie.default Man page Source code
untie.epidataCS Man page Source code
untie.matrix Man page Source code
update.epidataCS Man page Source code
update.hhh4 Man page Source code
update.twinstim Man page Source code
update.twinstim.model Source code
update.twinstim_stependemic Source code
update.twinstim_stepepidemic Source code
updateMoveExpr Source code
updateParams_nlm Source code
updateParams_nlminb Source code
updateParams_nr Source code
updateParams_optim Source code
upperbound Man page
upperbound,sts-method Man page
upperbound,stsBP-method Man page
upperbound<- Man page
upperbound<-,sts-method Man page
upperbound<-,stsBP-method Man page
vcov.summary.twinstim Source code
vcov.twinSIR Man page Source code
vcov.twinstim Man page Source code
w.chibarsq.sim Source code
wait Source code
weightedSumNE Source code
weightedSumNeighbours Source code
wrap.algo Man page Source code
xtable.algoQV Man page Source code
xtable.summary.twinstim Man page Source code
xtable.twinstim Man page Source code
year Man page
year,sts-method Man page
zetaweights Man page Source code
dirkschumacher/surveillance-fork documentation built on May 13, 2017, 2:25 a.m.