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.