Log-Gaussian Cox Process

Documentation for package ‘lgcp’ version 2.0

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A B C D E F G H I K L M N O P Q R S T U V W X Y Z misc

lgcp

-- A --

add.list	add.list function
addTemporalCovariates	addTemporalCovariates function
affine.fromFunction	affine.fromFunction function
affine.fromSPDF	affine.fromSPDF function
affine.fromXYZ	affine.fromXYZ function
affine.SpatialPolygonsDataFrame	affine.SpatialPolygonsDataFrame function
affine.stppp	affine.stppp function
aggCovInfo	aggCovInfo function
aggCovInfo.ArealWeightedMean	aggCovInfo.ArealWeightedMean function
aggCovInfo.ArealWeightedSum	aggCovInfo.ArealWeightedSum function
aggCovInfo.Majority	aggCovInfo.Majority function
aggregateCovariateInfo	aggregateCovariateInfo function
aggregateformulaList	aggregateformulaList function
andrieuthomsh	andrieuthomsh function
as.array.lgcpgrid	as.array.lgcpgrid function
as.fromXYZ	as.fromXYZ function
as.fromXYZ.fromFunction	as.fromXYZ.fromFunction function
as.im.fromFunction	as.im.fromFunction function
as.im.fromSPDF	as.im.fromSPDF function
as.im.fromXYZ	as.im.fromXYZ function
as.list.lgcpgrid	as.list.lgcpgrid function
as.owin.stapp	as.owin.stapp function
as.owinlist	as.owinlist function
as.owinlist.SpatialPolygonsDataFrame	as.owinlist.SpatialPolygonsDataFrame function
as.owinlist.stapp	as.owinlist.stapp function
as.ppp.mstppp	as.ppp.mstppp function
as.ppp.stppp	as.ppp.stppp function
as.SpatialGridDataFrame	as.SpatialGridDataFrame function
as.SpatialGridDataFrame.fromXYZ	as.SpatialGridDataFrame.fromXYZ function
as.SpatialPixelsDataFrame	as.SpatialPixelsDataFrame function
as.SpatialPixelsDataFrame.lgcpgrid	as.SpatialPixelsDataFrame.lgcpgrid function
as.stppp	as.stppp function
as.stppp.stapp	as.stppp.stapp function
assigninterp	assigninterp function
at	at function
autocorr	autocorr function
autocorrMultitype	autocorrMultitype function

-- B --

BetaParameters	BetaParameters function
betavals	betavals function
blockcircbase	blockcircbase function
blockcircbaseFunction	blockcircbaseFunction function
bt.scalar	bt.scalar function

-- C --

checkObsWin	checkObsWin function
chooseCellwidth	chooseCellwidth function
circulant	circulant function
circulant.matrix	circulant.matrix function
circulant.numeric	circulant.numeric function
clearinterp	clearinterp function
computeGradtruncSpatial	computeGradtruncSpatial function
computeGradtruncSpatioTemporal	computeGradtruncSpatioTemporal function
condProbs	condProbs function
constanth	constanth function
constantInTime	constantInTime function
constantInTime.numeric	constantInTime.numeric function
constantInTime.stppp	constantInTime.stppp function
cov.interp.fft	cov.interp.fft function
CovarianceFct	CovarianceFct function
covEffects	covEffects function
CovFunction	CovFunction function
CovFunction.function	CovFunction.function function
CovParameters	CovParameters function
Cvb	Cvb function

-- D --

d.func	d.func function
density.stppp	density.stppp function
discreteWindow	discreteWindow function
discreteWindow.lgcpPredict	discreteWindow.lgcpPredict function
dump2dir	dump2dir function

-- E --

eigenfrombase	eigenfrombase function
etavals	etavals function
EvaluatePrior	EvaluatePrior function
exceedProbs	exceedProbs function
exceedProbsAggregated	exceedProbsAggregated function
expectation	expectation function
expectation.lgcpPredict	expectation.lgcpPredict function
expectation.lgcpPredictSpatialOnlyPlusParameters	expectation.lgcpPredictSpatialOnlyPlusParameters function
exponentialCovFct	exponentialCovFct function
extendspatialAtRisk	extendspatialAtRisk function
extract	extract function
extract.lgcpPredict	extract.lgcpPredict function
Extract.mstppp	Extract.mstppp function
Extract.stppp	Extract.stppp function

-- F --

fftgrid	fftgrid function
fftinterpolate	fftinterpolate function
fftinterpolate.fromFunction	fftinterpolate.fromFunction function
fftinterpolate.fromSPDF	fftinterpolate.fromSPDF function
fftinterpolate.fromXYZ	interpolate.fromXYZ function
fftmultiply	fftmultiply function
formulaList	formulaList function

-- G --

GAfinalise	GAfinalise function
GAfinalise.MonteCarloAverage	GAfinalise.MonteCarloAverage function
GAfinalise.nullAverage	GAfinalise.nullAverage function
GAinitialise	GAinitialise function
GAinitialise.MonteCarloAverage	GAinitialise.MonteCarloAverage function
GAinitialise.nullAverage	GAinitialise.nullAverage function
GammafromY	GammafromY function
GAreturnvalue	GAreturnvalue function
GAreturnvalue.MonteCarloAverage	GAreturnvalue.MonteCarloAverage function
GAreturnvalue.nullAverage	GAreturnvalue.nullAverage function##'
GAupdate	GAupdate function
GAupdate.MonteCarloAverage	GAupdate.MonteCarloAverage function
GAupdate.nullAverage	GAupdate.nullAverage function
GaussianPrior	GaussianPrior function
gDisjoint_wg	gDisjoint_wg function
genFFTgrid	genFFTgrid function
getCellCounts	getCellCounts function
getCounts	getCounts function
getCovParameters	getCovParameters function
getCovParameters.GPrealisation	getCovParameters.GPrealisation function
getCovParameters.list	getCovParameters.list function
getinterp	getinterp function
getlgcpPredictSpatialINLA	getlgcpPredictSpatialINLA function
getLHSformulaList	getLHSformulaList function
getpolyol	getpolyol function
getRotation	getRotation function
getRotation.default	getRotation.default function
getRotation.stppp	getRotation.stppp function
getup	getup function
getZmat	getZmat function
getZmats	getZmats function
GFfinalise	GFfinalise function
GFfinalise.dump2dir	GFfinalise.dump2dir function
GFfinalise.nullFunction	GFfinalise.nullFunction function
GFinitialise	GFinitialise function
GFinitialise.dump2dir	GFinitialise.dump2dir function
GFinitialise.nullFunction	GFinitialise.nullFunction function
GFreturnvalue	GFreturnvalue function
GFreturnvalue.dump2dir	GFreturnvalue.dump2dir function
GFreturnvalue.nullFunction	GFreturnvalue.nullFunction function
GFupdate	GFupdate function
GFupdate.dump2dir	GFupdate.dump2dir function
GFupdate.nullFunction	GFupdate.nullFunction function
ginhomAverage	ginhomAverage function
gIntersects_pg	gIntersects_pg function
gOverlay	gOverlay function
GPdrv	GPdrv function
GPdrv2	GPdrv2 function
GPdrv2_Multitype	GPdrv2_Multitype function
GPlist2array	GPlist2array function
GPrealisation	GPrealisation function
grid2spdf	grid2spdf function
grid2spix	grid2spix function
grid2spoly	grid2spoly function
grid2spts	grid2spts function
gridav	gridav function
gridav.lgcpPredict	gridav.lgcpPredict function
gridfun	gridfun function
gridfun.lgcpPredict	gridfun.lgcpPredict function
gridInWindow	gridInWindow function
gTouches_wg	gTouches_wg function
gu	gu function
guessinterp	guessinterp function

-- H --

hasNext	generic hasNext method
hasNext.iter	hasNext.iter function
hvals	hvals function
hvals.lgcpPredict	hvals.lgcpPredict function

-- I --

identify.lgcpPredict	identify.lgcpPredict function
identifygrid	identifygrid function
image.lgcpgrid	image.lgcpgrid function
initialiseAMCMC	initialiseAMCMC function
initialiseAMCMC.andrieuthomsh	initaliseAMCMC.andrieuthomsh function
initialiseAMCMC.constanth	initaliseAMCMC.constanth function
integerise	integerise function
integerise.mstppp	integerise.mstppp function
integerise.stppp	integerise.stppp function
intens	intens function
intens.lgcpPredict	intens.lgcpPredict function
intens.lgcpSimMultitypeSpatialPlusParameters	intens.lgcpSimMultitypeSpatialPlusParameters function
intens.lgcpSimSpatialPlusParameters	intens.lgcpSimSpatialPlusParameters function
interptypes	interptypes function
inversebase	inversebase function
is.burnin	is this a burn-in iteration?
is.pow2	is.pow2 function
is.retain	do we retain this iteration?
is.SPD	is.SPD function
iteration	iteration number

-- K --

KinhomAverage

KinhomAverage function

-- L --

lambdaEst	lambdaEst function
lambdaEst.ppp	lambdaEst.ppp function
lambdaEst.stppp	lambdaEst.stppp function
lgcp	lgcp
lgcpbayes	lgcpbayes function
lgcpForecast	lgcpForecast function
lgcpgrid	lgcpgrid function
lgcpgrid.array	lgcpgrid.array function
lgcpgrid.list	lgcpgrid.list function
lgcpgrid.matrix	lgcpgrid.matrix function
lgcpInits	lgcpInits function
lgcppars	lgcppars function
lgcpPredict	lgcpPredict function
lgcpPredictAggregated	lgcpPredictAggregated function
lgcpPredictAggregateSpatialPlusPars	lgcpPredictAggregateSpatialPlusPars function
lgcpPredictMultitypeSpatialPlusPars	lgcpPredictMultitypeSpatialPlusPars function
lgcpPredictSpatial	lgcpPredictSpatial function
lgcpPredictSpatialINLA	lgcpPredictSpatialINLA function
lgcpPredictSpatialPlusPars	lgcpPredictSpatialPlusPars function
lgcpPredictSpatioTemporalPlusPars	lgcpPredictSpatioTemporalPlusPars function
lgcpPrior	lgcpPrior function
lgcpSim	lgcpSim function
lgcpSimMultitypeSpatialCovariates	lgcpSimMultitypeSpatialCovariates function
lgcpSimSpatial	lgcpSimSpatial function
lgcpSimSpatialCovariates	lgcpSimSpatialCovariates function
lgcpvignette	lgcpvignette function
loc2poly	loc2poly function
LogGaussianPrior	LogGaussianPrior function
loop.mcmc	loop over an iterator
ltar	ltar function

-- M --

MALAlgcp	MALAlgcp function
MALAlgcpAggregateSpatial.PlusPars	MALAlgcpAggregateSpatial.PlusPars function
MALAlgcpMultitypeSpatial.PlusPars	MALAlgcpMultitypeSpatial.PlusPars function
MALAlgcpSpatial	MALAlgcpSpatial function
MALAlgcpSpatial.PlusPars	MALAlgcpSpatial.PlusPars function
MALAlgcpSpatioTemporal.PlusPars	MALAlgcpSpatioTemporal.PlusPars function
matchcovariance	matchcovariance function
maternCovFct15	maternCovFct15 function
maternCovFct25	maternCovFct25 function
mcmcLoop	iterator for MCMC loops
mcmcpars	mcmcpars function
mcmcProgressNone	null progress monitor
mcmcProgressPrint	printing progress monitor
mcmcProgressTextBar	text bar progress monitor
mcmcProgressTk	graphical progress monitor
mcmctrace	mcmctrace function
mcmctrace.lgcpPredict	mcmctrace.lgcpPredict function
meanfield	meanfield function
meanfield.lgcpPredict	meanfield.lgcpPredict function
meanfield.lgcpPredictINLA	meanfield.lgcpPredictINLA function
MonteCarloAverage	MonteCarloAverage function
mstppp	mstppp function
mstppp.list	mstppp.list function
mstppp.ppp	mstppp.ppp function
mstppp.stppp	mstppp.stppp function
muEst	muEst function
multiply.list	multiply.list function

-- N --

neattable	neattable function
neigh2D	neigh2D function
nextStep	next step of an MCMC chain
nullAverage	nullAverage function
nullFunction	nullFunction function
numCases	numCases function

-- O --

osppp2latlon	osppp2latlon function
osppp2merc	osppp2merc function

-- P --

paramprec	paramprec function
paramprecbase	paramprecbase function
parautocorr	parautocorr function
parsummary	parsummary function
plot.fromSPDF	plot.fromSPDF function
plot.fromXYZ	plot.fromXYZ function
plot.lgcpAutocorr	plot.lgcpAutocorr function
plot.lgcpgrid	plot.lgcpgrid function
plot.lgcpPredict	plot.lgcpPredict function
plot.lgcpQuantiles	plot.lgcpQuantiles function
plot.lgcpZmat	plot.lgcpZmat function
plot.mcmcdiag	plot.mcmcdiag function
plot.mstppp	plot.mstppp function
plot.stppp	plot.stppp function
plot.temporalAtRisk	plot.temporalAtRisk function
plotExceed	plotExceed function
plotExceed.array	plotExceed.array function
plotExceed.lgcpPredict	plotExceed.lgcpPredict function
plotit	plotit function
postcov	postcov function
postcov.lgcpPredictAggregateSpatialPlusParameters	postcov.lgcpPredictAggregateSpatialPlusParameters function
postcov.lgcpPredictMultitypeSpatialPlusParameters	postcov.lgcpPredictMultitypeSpatialPlusParameters function
postcov.lgcpPredictSpatialOnlyPlusParameters	postcov.lgcpPredictSpatialOnlyPlusParameters function
postcov.lgcpPredictSpatioTemporalPlusParameters	postcov.lgcpPredictSpatioTemporalPlusParameters function
print.dump2dir	print.dump2dir function
print.fromFunction	print.fromFunction function
print.fromSPDF	print.fromSPDF function
print.fromXYZ	print.fromXYZ function
print.gridaverage	print.gridaverage function
print.lgcpgrid	print.lgcpgrid function
print.lgcpPredict	print.lgcpPredict function
print.mcmc	print.mcmc function
print.mstppp	print.mstppp function
print.stapp	print.stapp function
print.stppp	print.stppp function
print.temporalAtRisk	print.temporalAtRisk function
priorpost	priorpost function
PriorSpec	PriorSpec function
PriorSpec.list	PriorSpec.list function

-- Q --

quantile.lgcpgrid	quantile.lgcpgrid function
quantile.lgcpPredict	quantile.lgcpPredict function

-- R --

RandomFieldsCovFct	RandomFieldsCovFct function
raster.lgcpgrid	raster.lgcpgrid function
rescale.mstppp	rescale.mstppp function
rescale.stppp	rescale.stppp function
resetLoop	reset iterator
rgauss	rgauss function
roteffgain	roteffgain function
rotmat	rotmat function
rr	rr function
rr.lgcpPredict	rr.lgcpPredict function

-- S --

samplePosterior	samplePosterior function
segProbs	segProbs function
seintens	seintens function
seintens.lgcpPredict	seintens.lgcpPredict function
selectObsWindow	selectObsWindow function
selectObsWindow.default	selectObsWindow.default function
selectObsWindow.stppp	selectObsWindow.stppp function
serr	serr function
serr.lgcpPredict	serr.lgcpPredict function
setoutput	setoutput function
setTxtProgressBar2	set the progress bar
showGrid	showGrid function
showGrid.default	showGrid.default function
showGrid.lgcpPredict	showGrid.lgcpPredict function
showGrid.stppp	showGrid.stppp function
smultiply.list	smultiply.list function
sparsebase	sparsebase function
spatialAtRisk	spatialAtRisk function
spatialAtRisk.bivden	spatialAtRisk.bivden function
spatialAtRisk.default	spatialAtRisk.default function
spatialAtRisk.fromXYZ	spatialAtRisk.fromXYZ function
spatialAtRisk.function	spatialAtRisk.function function
spatialAtRisk.im	spatialAtRisk.im function
spatialAtRisk.lgcpgrid	spatialAtRisk.lgcpgrid function
spatialAtRisk.SpatialGridDataFrame	spatialAtRisk.SpatialGridDataFrame function
spatialAtRisk.SpatialPolygonsDataFrame	spatialAtRisk.SpatialPolygonsDataFrame function
spatialIntensities	spatialIntensities function
spatialIntensities.fromSPDF	spatialIntensities.fromSPDF function
spatialIntensities.fromXYZ	spatialIntensities.fromXYZ function
spatialparsEst	spatialparsEst function
SpatialPolygonsDataFrame.stapp	SpatialPolygonsDataFrame.stapp function
SpikedExponentialCovFct	SpikedExponentialCovFct function
stapp	stapp function
stapp.list	stapp.list function
stapp.SpatialPolygonsDataFrame	stapp.SpatialPolygonsDataFrame function
stGPrealisation	stGPrealisation function
stppp	stppp function
stppp.list	stppp.list function
stppp.ppp	stppp.ppp function
summary.lgcpgrid	summary.lgcpgrid function
summary.mcmc	summary.mcmc function

-- T --

target.and.grad.AggregateSpatialPlusPars	target.and.grad.AggregateSpatialPlusPars function
target.and.grad.MultitypespatialPlusPars	target.and.grad.MultitypespatialPlusPars function
target.and.grad.spatial	target.and.grad.spatial function
target.and.grad.spatialPlusPars	target.and.grad.spatialPlusPars function
target.and.grad.spatiotemporal	target.and.grad.spatiotemporal function
target.and.grad.SpatioTemporalPlusPars	target.and.grad.SpatioTemporalPlusPars function
temporalAtRisk	temporalAtRisk function
temporalAtRisk.function	temporalAtRisk.function function
temporalAtRisk.numeric	temporalAtRisk.numeric function
tempRaster	tempRaster function
textsummary	textsummary function
thetaEst	thetaEst function
toral.cov.mat	toral.cov.mat function
touchingowin	touchingowin function
traceplots	traceplots function
transblack	transblack function
transblue	transblue function
transgreen	transgreen function
transred	transred function
txtProgressBar2	A text progress bar with label

-- U --

updateAMCMC	updateAMCMC function
updateAMCMC.andrieuthomsh	updateAMCMC.andrieuthomsh function
updateAMCMC.constanth	updateAMCMC.constanth function

-- V --

varfield	varfield function
varfield.lgcpPredict	varfield.lgcpPredict function
varfield.lgcpPredictINLA	varfield.lgcpPredictINLA function

-- W --

window.lgcpPredict	window.lgcpPredict function
wpopdata	Population of Welsh counties
wtowncoords	Welsh town details: location
wtowns	Welsh town details: population

-- X --

xvals	xvals function
xvals.default	xvals.default function
xvals.fromXYZ	xvals.fromXYZ function
xvals.lgcpPredict	xvals.lgcpPredict function
xvals.SpatialGridDataFrame	xvals.SpatialGridDataFrame function

-- Y --

YfromGamma	YfromGamma function
yvals	yvals function
yvals.default	yvals.default function
yvals.fromXYZ	yvals.fromXYZ function
yvals.lgcpPredict	yvals.lgcpPredict function
yvals.SpatialGridDataFrame	yvals.SpatialGridDataFrame function

-- Z --

zvals	zvals function
zvals.default	zvals.default function
zvals.fromXYZ	zvals.fromXYZ function
zvals.SpatialGridDataFrame	zvals.SpatialGridDataFrame function

-- misc --

"[.mstppp"	Extract.mstppp function
"[.stppp"	Extract.stppp function
.onAttach	.onAttach function
[.mstppp	Extract.mstppp function
[.stppp	Extract.stppp function