The functions listed here are no longer part of surveillance.
## Removed in surveillance 1.17.0
compMatrix.writeTable(compMatrix)
correct53to52(disProgObj, firstweek = 1)
enlargeData(disProgObj, range = 1:156, times = 1)
makePlot(outputpath, data = "k1", method = "rki1",
name, disease, range = 157:339)
readData(abb, week53to52=TRUE, sysPath=TRUE)
test(data = c("k1", "m5"), range = 157:339)
testSim(p = 0.99, r = 0.01, length = 400, A = 1, alpha = 1,
beta = 0, phi = 0, frequency = 1, state = NULL, K,
range = 200:400)
toFileDisProg(disProgObj, toFile)## Removed in surveillance 1.18.0
algo.hhh(disProgObj, control=list(
lambda=TRUE, neighbours=FALSE, linear=FALSE, nseason=0,
negbin=c("none", "single", "multiple"),
proportion=c("none", "single", "multiple"), lag.range=NULL
), thetastart=NULL, verbose=TRUE)
algo.hhh.grid(disProgObj, control=list(
lambda=TRUE, neighbours=FALSE, linear=FALSE, nseason=0,
negbin=c("none", "single", "multiple"),
proportion=c("none", "single", "multiple"), lag.range=NULL
), thetastartMatrix, maxTime=1800, verbose=FALSE)
create.grid(disProgObj, control, params=list(
epidemic=c(0.1, 0.9, 5), endemic=c(-0.5, 0.5, 3),
negbin=c(0.3, 12, 10)
))
## Removed in surveillance 1.20.0
qlomax(p, scale, shape)
## Removed in surveillance 1.22.0
inside.gpc.poly(x, y = NULL, polyregion, mode.checked = FALSE)
# S3 method for gpc.poly
intersectPolyCircle(object, center, radius, npoly = 32,
useGEOS = FALSE, ...)
# S3 method for gpc.poly
scale(x, center = c(0,0), scale = c(1,1))
The trivial function compMatrix.writeTable is no longer used
(it did nothing more than generating an xtable of its input).
The ancient test function makePlot is no longer used,
nor are functions readData (the datasets are still available
via data(m1) etc) and correct53to52 /
enlargeData (which both only worked for old "disProg"
objects with non-matrix elements). enlargeData is still
exemplified in the old vignette("surveillance").
test calls of outbreak detection algorithms applied to the old
SurvStat datasets can be found in vignette("surveillance"),
and testSim is provided as an example
in help("sim.pointSource").
Functions related to the old "disProg"
class are no longer needed. The effect of toFileDisProg could
still be achieved via write.table of
as.data.frame(disProg2sts(disProgObj))[c("epoch", "observed", "state")].
algo.hhh was an early implementation of the HHH regression
framework for multivariate time series of infectious disease counts.
An improved and considerably extended implementation is provided by
the hhh4 function since 2012.
A qlomax function is provided in package VGAM.
Long unused methods for "gpc.poly" objects have been removed;
the corresponding package gpclib has been unmaintained on CRAN.