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lgcp (version 1.3-8)

Log-Gaussian Cox Process

Description

Spatial and spatio-temporal modelling of point patterns using the log-Gaussian Cox process. Bayesian inference for spatial, spatiotemporal, multivariate and aggregated point processes using Markov chain Monte Carlo.

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Version

Install

install.packages('lgcp')

Monthly Downloads

854

Version

1.3-8

License

GPL-2 | GPL-3

Maintainer

Benjamin Taylor

Last Published

February 4th, 2015

Functions in lgcp (1.3-8)

BetaParameters function

as.ppp.stppp function

extract function

as.im.fromFunction

as.im.fromFunction function

affine.fromSPDF

affine.fromSPDF function

GFupdate function

MonteCarloAverage

MonteCarloAverage function

LogGaussianPrior

LogGaussianPrior function

CovParameters function

GAupdate function

YfromGamma function

EvaluatePrior function

as.array.lgcpgrid

as.array.lgcpgrid function

as.fromXYZ.fromFunction

as.fromXYZ.fromFunction function

GAupdate.nullAverage

GAupdate.nullAverage function

GFreturnvalue.nullFunction

GFreturnvalue.nullFunction function

circulant.numeric

circulant.numeric function

C.diff.single.im

C.diff.single.im function

as.owinlist.stapp

as.owinlist.stapp function

aggCovInfo.ArealWeightedSum

aggCovInfo.ArealWeightedSum function

affine.SpatialPolygonsDataFrame

affine.SpatialPolygonsDataFrame function

fftgrid function

GPdrv2_Multitype

GPdrv2_Multitype function

as.fromXYZ function

as.list.lgcpgrid

as.list.lgcpgrid function

constanth function

blockcircbaseFunction

blockcircbaseFunction function

GAreturnvalue function

MALAlgcpSpatial.PlusPars

MALAlgcpSpatial.PlusPars function

GAinitialise function

as.stppp function

as.im.fromXYZ function

lgcpgrid.array function

MALAlgcp function

lambdaEst.stppp

lambdaEst.stppp function

gridav function

Extract.stppp function

initialiseAMCMC.andrieuthomsh

initaliseAMCMC.andrieuthomsh function

GFreturnvalue.dump2dir

GFreturnvalue.dump2dir function

mstppp.list function

grid2spix function

GFfinalise.dump2dir

GFfinalise.dump2dir function

computeGradtruncSpatial

computeGradtruncSpatial function

intens.lgcpSimMultitypeSpatialPlusParameters

intens.lgcpSimMultitypeSpatialPlusParameters function

aggCovInfo.ArealWeightedMean

aggCovInfo.ArealWeightedMean function

meanfield.lgcpPredictINLA

meanfield.lgcpPredictINLA function

GAinitialise.nullAverage

GAinitialise.nullAverage function

fftinterpolate.fromXYZ

interpolate.fromXYZ function

bt.scalar function

as.im.fromSPDF function

affine.fromFunction

affine.fromFunction function

GaussianPrior function

MALAlgcpMultitypeSpatial.PlusPars

MALAlgcpMultitypeSpatial.PlusPars function

spatialAtRisk.lgcpgrid

spatialAtRisk.lgcpgrid function

generic hasNext method

add.list function

aggregateCovariateInfo

aggregateCovariateInfo function

autocorrMultitype

autocorrMultitype function

initialiseAMCMC.constanth

initaliseAMCMC.constanth function

as.stppp.stapp function

autocorr function

constantInTime function

as.SpatialPixelsDataFrame.lgcpgrid

as.SpatialPixelsDataFrame.lgcpgrid function

circulant function

lgcpSimSpatialCovariates

lgcpSimSpatialCovariates function

target.and.grad.spatial

target.and.grad.spatial function

chooseCellwidth

chooseCellwidth function

CovFunction.function

CovFunction.function function

integerise function

initialiseAMCMC

initialiseAMCMC function

grid2spts function

CovFunction function

density.stppp function

expectation function

lgcpPredictAggregateSpatialPlusPars

lgcpPredictAggregateSpatialPlusPars function

seintens.lgcpPredict

seintens.lgcpPredict function

as.SpatialGridDataFrame

as.SpatialGridDataFrame function

exceedProbs function

lgcpbayes function

selectObsWindow

selectObsWindow function

condProbs function

GAfinalise.nullAverage

GAfinalise.nullAverage function

plot.lgcpQuantiles

plot.lgcpQuantiles function

K.diff.single function

hvals.lgcpPredict

hvals.lgcpPredict function

cov.interp.fft function

spatialAtRisk function

temporalAtRisk.function

temporalAtRisk.function function

betavals function

transgreen function

transblack function

GFupdate.dump2dir

GFupdate.dump2dir function

GFupdate.nullFunction

GFupdate.nullFunction function

varfield.lgcpPredictINLA

varfield.lgcpPredictINLA function

GPrealisation function

affine.stppp function

window.lgcpPredict

window.lgcpPredict function

aggregateformulaList

aggregateformulaList function

lambdaEst.ppp function

affine.fromXYZ function

lgcppars function

guessinterp function

as.owinlist function

Welsh town details: population

mstppp function

gridfun.lgcpPredict

gridfun.lgcpPredict function

exponentialCovFct

exponentialCovFct function

print.stppp function

minimum.contrast

minimum.contrast function

PriorSpec.list function

as.SpatialGridDataFrame.fromXYZ

as.SpatialGridDataFrame.fromXYZ function

fftinterpolate function

lambdaEst function

spatialparsEst function

as.ppp.mstppp function

getCovParameters.list

getCovParameters.list function

covEffects function

KinhomAverage function

intens.lgcpPredict

intens.lgcpPredict function

assigninterp function

constantInTime.stppp

constantInTime.stppp function

neigh2D function

integerise.stppp

integerise.stppp function

fftmultiply function

eigenfrombase function

getRotation.default

getRotation.default function

mcmctrace.lgcpPredict

mcmctrace.lgcpPredict function

getRotation function

lgcpPredictMultitypeSpatialPlusPars

lgcpPredictMultitypeSpatialPlusPars function

lgcpPredictSpatialPlusPars

lgcpPredictSpatialPlusPars function

fftinterpolate.fromFunction

fftinterpolate.fromFunction function

integerise.mstppp

integerise.mstppp function

circulant.matrix

circulant.matrix function

lgcpgrid.list function

spatialIntensities.fromSPDF

spatialIntensities.fromSPDF function

blockcircbase function

dump2dir function

gridfun function

numCases function

getCellCounts function

mstppp.ppp function

rr.lgcpPredict function

lgcpPredictSpatial

lgcpPredictSpatial function

matchcovariance

matchcovariance function

temporalAtRisk.numeric

temporalAtRisk.numeric function

getCovParameters.GPrealisation

getCovParameters.GPrealisation function

lgcpInits function

parautocorr function

stapp.list function

lgcpSim function

Extract.mstppp function

plotExceed function

GAupdate.MonteCarloAverage

GAupdate.MonteCarloAverage function

getinterp function

plot.lgcpPredict

plot.lgcpPredict function

identify.lgcpPredict

identify.lgcpPredict function

plotit function

lgcpPredictSpatioTemporalPlusPars

lgcpPredictSpatioTemporalPlusPars function

GAfinalise.MonteCarloAverage

GAfinalise.MonteCarloAverage function

GammafromY function

print.lgcpgrid function

print.temporalAtRisk

print.temporalAtRisk function

GPlist2array function

interptypes function

loop over an iterator

mcmcpars function

rescale.stppp function

GAinitialise.MonteCarloAverage

GAinitialise.MonteCarloAverage function

aggCovInfo.Majority

aggCovInfo.Majority function

print.gridaverage

print.gridaverage function

nullAverage function

getlgcpPredictSpatialINLA

getlgcpPredictSpatialINLA function

quantile.lgcpgrid

quantile.lgcpgrid function

multiply.list function

GFinitialise.dump2dir

GFinitialise.dump2dir function

mcmctrace function

lgcpPredictAggregated

lgcpPredictAggregated function

as.owinlist.SpatialPolygonsDataFrame

as.owinlist.SpatialPolygonsDataFrame function

addTemporalCovariates

addTemporalCovariates function

print.stapp function

GFinitialise.nullFunction

GFinitialise.nullFunction function

spatialAtRisk.im

spatialAtRisk.im function

spatialAtRisk.default

spatialAtRisk.default function

sparsebase function

summary.lgcpgrid

summary.lgcpgrid function

raster.lgcpgrid

raster.lgcpgrid function

mstppp.stppp function

postcov.lgcpPredictSpatialOnlyPlusParameters

postcov.lgcpPredictSpatialOnlyPlusParameters function

plot.fromXYZ function

GFreturnvalue function

lgcpPredict function

PriorSpec function

setoutput function

aggCovInfo function

fftinterpolate.fromSPDF

fftinterpolate.fromSPDF function

GPdrv2 function

spatialAtRisk.function

spatialAtRisk.function function

print.dump2dir function

print.lgcpPredict

print.lgcpPredict function

minimum.contrast.spatiotemporal

minimum.contrast.spatiotemporal function

graphical progress monitor

print.mcmc function

serr.lgcpPredict

serr.lgcpPredict function

grid2spoly function

mcmcProgressNone

null progress monitor

xvals.SpatialGridDataFrame

xvals.SpatialGridDataFrame function

iteration number

loc2poly function

rgauss function

xvals.lgcpPredict

xvals.lgcpPredict function

xvals.fromXYZ function

print.fromSPDF function

neattable function

MALAlgcpAggregateSpatial.PlusPars

MALAlgcpAggregateSpatial.PlusPars function

zvals.SpatialGridDataFrame

zvals.SpatialGridDataFrame function

yvals.default function

updateAMCMC.constanth

updateAMCMC.constanth function

transblue function

summary.mcmc function

txtProgressBar2

A text progress bar with label

RandomFieldsCovFct

RandomFieldsCovFct function

stapp.SpatialPolygonsDataFrame

stapp.SpatialPolygonsDataFrame function

target.and.grad.spatiotemporal

target.and.grad.spatiotemporal function

discreteWindow function

d.func function

getZmats function

as.SpatialPixelsDataFrame

as.SpatialPixelsDataFrame function

plot.lgcpAutocorr

plot.lgcpAutocorr function

showGrid.lgcpPredict

showGrid.lgcpPredict function

gridav.lgcpPredict

gridav.lgcpPredict function

plot.lgcpgrid function

plotExceed.array

plotExceed.array function

SpikedExponentialCovFct

SpikedExponentialCovFct function

toral.cov.mat function

print.mstppp function

constantInTime.numeric

constantInTime.numeric function

showGrid function

updateAMCMC function

is.SPD function

checkObsWin function

setTxtProgressBar2

set the progress bar

plot.mstppp function

clearinterp function

lgcpgrid.matrix

lgcpgrid.matrix function

g.diff.single function

varfield.lgcpPredict

varfield.lgcpPredict function

selectObsWindow.default

selectObsWindow.default function

mcmcProgressPrint

printing progress monitor

stppp.ppp function

showGrid.stppp function

gOverlay function

Population of Welsh counties

stppp.list function

yvals.fromXYZ function

varfield function

do we retain this iteration?

discreteWindow.lgcpPredict

discreteWindow.lgcpPredict function

textsummary function

etavals function

print.fromFunction

print.fromFunction function

target.and.grad.spatialPlusPars

target.and.grad.spatialPlusPars function

getLHSformulaList

getLHSformulaList function

plotExceed.lgcpPredict

plotExceed.lgcpPredict function

getpolyol function

tempRaster function

xvals.default function

quantile.lgcpPredict

quantile.lgcpPredict function

my.ginhomAverage

my.ginhomAverage function

stGPrealisation

stGPrealisation function

mcmcProgressTextBar

text bar progress monitor

zvals.fromXYZ function

postcov.lgcpPredictMultitypeSpatialPlusParameters

postcov.lgcpPredictMultitypeSpatialPlusParameters function

GAfinalise function

updateAMCMC.andrieuthomsh

updateAMCMC.andrieuthomsh function

lgcpPrior function

spatialAtRisk.bivden

spatialAtRisk.bivden function

osppp2latlon function

Welsh town details: location

yvals.lgcpPredict

yvals.lgcpPredict function

gridInWindow function

zvals.default function

identifygrid function

GAreturnvalue.MonteCarloAverage

GAreturnvalue.MonteCarloAverage function

extract.lgcpPredict

extract.lgcpPredict function

thetaEst function

postcov.lgcpPredictAggregateSpatialPlusParameters

postcov.lgcpPredictAggregateSpatialPlusParameters function

MALAlgcpSpatioTemporal.PlusPars

MALAlgcpSpatioTemporal.PlusPars function

inversebase function

roteffgain function

intens.lgcpSimSpatialPlusParameters

intens.lgcpSimSpatialPlusParameters function

print.fromXYZ function

spatialIntensities.fromXYZ

spatialIntensities.fromXYZ function

samplePosterior

samplePosterior function

seintens function

segProbs function

MALAlgcpSpatial

MALAlgcpSpatial function

showGrid.default

showGrid.default function

lgcpForecast function

lgcpPredictSpatialINLA

lgcpPredictSpatialINLA function

intens function

GFfinalise.nullFunction

GFfinalise.nullFunction function

smultiply.list function

traceplots function

SpatialPolygonsDataFrame.stapp

SpatialPolygonsDataFrame.stapp function

GFfinalise function

lgcpSimMultitypeSpatialCovariates

lgcpSimMultitypeSpatialCovariates function

iterator for MCMC loops

nullFunction function

meanfield function

my.KinhomAverage

my.KinhomAverage function

expectation.lgcpPredictSpatialOnlyPlusParameters

expectation.lgcpPredictSpatialOnlyPlusParameters function

plot.fromSPDF function

extendspatialAtRisk

extendspatialAtRisk function

getZmat function

computeGradtruncSpatioTemporal

computeGradtruncSpatioTemporal function

postcov function

spatialAtRisk.SpatialPolygonsDataFrame

spatialAtRisk.SpatialPolygonsDataFrame function

lgcpgrid function

target.and.grad.MultitypespatialPlusPars

target.and.grad.MultitypespatialPlusPars function

rescale.mstppp function

postcov.lgcpPredictSpatioTemporalPlusParameters

postcov.lgcpPredictSpatioTemporalPlusParameters function

next step of an MCMC chain

formulaList function

osppp2merc function

plot.stppp function

priorpost function

ginhomAverage function

spatialAtRisk.fromXYZ

spatialAtRisk.fromXYZ function

target.and.grad.SpatioTemporalPlusPars

target.and.grad.SpatioTemporalPlusPars function

transred function

paramprecbase function

temporalAtRisk function

yvals.SpatialGridDataFrame

yvals.SpatialGridDataFrame function

meanfield.lgcpPredict

meanfield.lgcpPredict function

paramprec function

spatialIntensities

spatialIntensities function

touchingowin function

plot.mcmcdiag function

plot.temporalAtRisk

plot.temporalAtRisk function

selectObsWindow.stppp

selectObsWindow.stppp function

exceedProbsAggregated

exceedProbsAggregated function

getCovParameters

getCovParameters function

getRotation.stppp

getRotation.stppp function

grid2spdf function

image.lgcpgrid function

lgcpSimSpatial function

rotmat function

spatialAtRisk.SpatialGridDataFrame

spatialAtRisk.SpatialGridDataFrame function

target.and.grad.AggregateSpatialPlusPars

target.and.grad.AggregateSpatialPlusPars function

GFinitialise function

GAreturnvalue.nullAverage

GAreturnvalue.nullAverage function##'

andrieuthomsh function

as.owin.stapp function

expectation.lgcpPredict

expectation.lgcpPredict function

genFFTgrid function

getCounts function

hasNext.iter function

is this a burn-in iteration?

is.pow2 function

lgcpvignette function

plot.lgcpZmat function

parsummary function