Learn R Programming

⚠️There's a newer version (1.8) of this package.Take me there.

lgcp (version 1.3-13)

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.

Copy Link

Version

Install

install.packages('lgcp')

Monthly Downloads

829

Version

1.3-13

License

GPL-2 | GPL-3

Maintainer

Benjamin Taylor

Last Published

November 19th, 2015

Functions in lgcp (1.3-13)

andrieuthomsh function

expectation function

lgcpgrid function

CovParameters function

GAinitialise.MonteCarloAverage

GAinitialise.MonteCarloAverage function

CovFunction function

target.and.grad.spatialPlusPars

target.and.grad.spatialPlusPars function

aggCovInfo.ArealWeightedSum

aggCovInfo.ArealWeightedSum function

affine.fromXYZ function

GFupdate function

as.SpatialPixelsDataFrame

as.SpatialPixelsDataFrame function

K.diff.single function

GaussianPrior function

KinhomAverage function

extendspatialAtRisk

extendspatialAtRisk function

as.SpatialPixelsDataFrame.lgcpgrid

as.SpatialPixelsDataFrame.lgcpgrid function

lgcpSim function

discreteWindow.lgcpPredict

discreteWindow.lgcpPredict function

grid2spix function

GFreturnvalue function

fftgrid function

bt.scalar function

minimum.contrast.spatiotemporal

minimum.contrast.spatiotemporal function

iterator for MCMC loops

GAreturnvalue.MonteCarloAverage

GAreturnvalue.MonteCarloAverage function

GFfinalise.nullFunction

GFfinalise.nullFunction function

EvaluatePrior function

getRotation.stppp

getRotation.stppp function

interptypes function

GAinitialise function

GFfinalise.dump2dir

GFfinalise.dump2dir function

spatialparsEst function

constantInTime function

GAinitialise.nullAverage

GAinitialise.nullAverage function

chooseCellwidth

chooseCellwidth function

RandomFieldsCovFct

RandomFieldsCovFct function

grid2spdf function

gridfun.lgcpPredict

gridfun.lgcpPredict function

target.and.grad.AggregateSpatialPlusPars

target.and.grad.AggregateSpatialPlusPars function

GFinitialise function

YfromGamma function

my.ginhomAverage

my.ginhomAverage function

fftinterpolate.fromXYZ

interpolate.fromXYZ function

meanfield function

affine.stppp function

PriorSpec.list function

expectation.lgcpPredict

expectation.lgcpPredict function

intens function

circulant function

density.stppp function

guessinterp function

GFupdate.dump2dir

GFupdate.dump2dir function

as.owinlist.SpatialPolygonsDataFrame

as.owinlist.SpatialPolygonsDataFrame function

GAfinalise.MonteCarloAverage

GAfinalise.MonteCarloAverage function

postcov.lgcpPredictAggregateSpatialPlusParameters

postcov.lgcpPredictAggregateSpatialPlusParameters function

gOverlay function

extract.lgcpPredict

extract.lgcpPredict function

as.stppp function

print.fromFunction

print.fromFunction function

GPdrv2_Multitype

GPdrv2_Multitype function

initialiseAMCMC.constanth

initaliseAMCMC.constanth function

lgcpPredictMultitypeSpatialPlusPars

lgcpPredictMultitypeSpatialPlusPars function

GammafromY function

genFFTgrid function

as.array.lgcpgrid

as.array.lgcpgrid function

aggregateformulaList

aggregateformulaList function

lgcpSimSpatialCovariates

lgcpSimSpatialCovariates function

paramprecbase function

sparsebase function

gridfun function

samplePosterior

samplePosterior function

image.lgcpgrid function

transred function

target.and.grad.MultitypespatialPlusPars

target.and.grad.MultitypespatialPlusPars function

lgcpSimSpatial function

as.SpatialGridDataFrame.fromXYZ

as.SpatialGridDataFrame.fromXYZ function

lgcpPredictSpatioTemporalPlusPars

lgcpPredictSpatioTemporalPlusPars function

blockcircbaseFunction

blockcircbaseFunction function

mcmctrace function

mcmcpars function

stapp.SpatialPolygonsDataFrame

stapp.SpatialPolygonsDataFrame function

CovFunction.function

CovFunction.function function

osppp2latlon function

graphical progress monitor

circulant.matrix

circulant.matrix function

constanth function

as.SpatialGridDataFrame

as.SpatialGridDataFrame function

postcov function

autocorrMultitype

autocorrMultitype function

exponentialCovFct

exponentialCovFct function

loop over an iterator

integerise.mstppp

integerise.mstppp function

getinterp function

gridInWindow function

lgcpgrid.list function

extract function

paramprec function

mstppp.ppp function

lgcpSimMultitypeSpatialCovariates

lgcpSimMultitypeSpatialCovariates function

thetaEst function

plotExceed.lgcpPredict

plotExceed.lgcpPredict function

smultiply.list function

fftinterpolate.fromFunction

fftinterpolate.fromFunction function

parsummary function

yvals.default function

spatialAtRisk.im

spatialAtRisk.im function

mcmcProgressTextBar

text bar progress monitor

print.mstppp function

spatialAtRisk.SpatialPolygonsDataFrame

spatialAtRisk.SpatialPolygonsDataFrame function

postcov.lgcpPredictSpatioTemporalPlusParameters

postcov.lgcpPredictSpatioTemporalPlusParameters function

plot.lgcpAutocorr

plot.lgcpAutocorr function

rgauss function

GAfinalise.nullAverage

GAfinalise.nullAverage function

GAfinalise function

Extract.stppp function

rr.lgcpPredict function

LogGaussianPrior

LogGaussianPrior function

exceedProbsAggregated

exceedProbsAggregated function

plot.fromSPDF function

osppp2merc function

add.list function

GAupdate.MonteCarloAverage

GAupdate.MonteCarloAverage function

stppp.ppp function

initialiseAMCMC

initialiseAMCMC function

GFreturnvalue.dump2dir

GFreturnvalue.dump2dir function

print.lgcpgrid function

aggCovInfo.Majority

aggCovInfo.Majority function

showGrid.default

showGrid.default function

txtProgressBar2

A text progress bar with label

lgcpbayes function

affine.SpatialPolygonsDataFrame

affine.SpatialPolygonsDataFrame function

temporalAtRisk.numeric

temporalAtRisk.numeric function

aggCovInfo function

print.gridaverage

print.gridaverage function

xvals.fromXYZ function

SpatialPolygonsDataFrame.stapp

SpatialPolygonsDataFrame.stapp function

summary.lgcpgrid

summary.lgcpgrid function

target.and.grad.SpatioTemporalPlusPars

target.and.grad.SpatioTemporalPlusPars function

eigenfrombase function

transblack function

Welsh town details: population

tempRaster function

varfield.lgcpPredictINLA

varfield.lgcpPredictINLA function

constantInTime.stppp

constantInTime.stppp function

spatialAtRisk.bivden

spatialAtRisk.bivden function

Welsh town details: location

as.owinlist function

as.fromXYZ function

xvals.lgcpPredict

xvals.lgcpPredict function

covEffects function

fftinterpolate function

circulant.numeric

circulant.numeric function

as.stppp.stapp function

spatialIntensities.fromSPDF

spatialIntensities.fromSPDF function

getRotation.default

getRotation.default function

parautocorr function

as.ppp.mstppp function

etavals function

generic hasNext method

exceedProbs function

gridav function

getCovParameters.list

getCovParameters.list function

inversebase function

textsummary function

lgcpPrior function

iteration number

print.mcmc function

getCovParameters

getCovParameters function

lambdaEst.stppp

lambdaEst.stppp function

print.stapp function

getCovParameters.GPrealisation

getCovParameters.GPrealisation function

getpolyol function

meanfield.lgcpPredict

meanfield.lgcpPredict function

hasNext.iter function

identify.lgcpPredict

identify.lgcpPredict function

minimum.contrast

minimum.contrast function

stppp.list function

varfield function

neigh2D function

is.pow2 function

lgcppars function

selectObsWindow.default

selectObsWindow.default function

priorpost function

nullFunction function

GFinitialise.dump2dir

GFinitialise.dump2dir function

print.stppp function

raster.lgcpgrid

raster.lgcpgrid function

MALAlgcpAggregateSpatial.PlusPars

MALAlgcpAggregateSpatial.PlusPars function

plot.stppp function

spatialAtRisk function

MALAlgcpSpatioTemporal.PlusPars

MALAlgcpSpatioTemporal.PlusPars function

affine.fromFunction

affine.fromFunction function

computeGradtruncSpatial

computeGradtruncSpatial function

formulaList function

clearinterp function

constantInTime.numeric

constantInTime.numeric function

plot.lgcpZmat function

do we retain this iteration?

zvals.SpatialGridDataFrame

zvals.SpatialGridDataFrame function

rescale.mstppp function

selectObsWindow

selectObsWindow function

getCounts function

aggCovInfo.ArealWeightedMean

aggCovInfo.ArealWeightedMean function

spatialIntensities.fromXYZ

spatialIntensities.fromXYZ function

d.func function

BetaParameters function

getLHSformulaList

getLHSformulaList function

grid2spts function

intens.lgcpSimMultitypeSpatialPlusParameters

intens.lgcpSimMultitypeSpatialPlusParameters function

lambdaEst function

matchcovariance

matchcovariance function

GFupdate.nullFunction

GFupdate.nullFunction function

Extract.mstppp function

integerise.stppp

integerise.stppp function

stGPrealisation

stGPrealisation function

target.and.grad.spatiotemporal

target.and.grad.spatiotemporal function

GAupdate.nullAverage

GAupdate.nullAverage function

MALAlgcp function

GPrealisation function

lgcpvignette function

yvals.SpatialGridDataFrame

yvals.SpatialGridDataFrame function

betavals function

print.fromSPDF function

as.owinlist.stapp

as.owinlist.stapp function

MALAlgcpSpatial

MALAlgcpSpatial function

mcmcProgressNone

null progress monitor

as.owin.stapp function

plot.mstppp function

mcmcProgressPrint

printing progress monitor

checkObsWin function

loc2poly function

selectObsWindow.stppp

selectObsWindow.stppp function

mstppp.list function

spatialIntensities

spatialIntensities function

fftinterpolate.fromSPDF

fftinterpolate.fromSPDF function

roteffgain function

quantile.lgcpgrid

quantile.lgcpgrid function

showGrid function

is.SPD function

plot.fromXYZ function

expectation.lgcpPredictSpatialOnlyPlusParameters

expectation.lgcpPredictSpatialOnlyPlusParameters function

hvals.lgcpPredict

hvals.lgcpPredict function

condProbs function

getCellCounts function

grid2spoly function

intens.lgcpPredict

intens.lgcpPredict function

print.temporalAtRisk

print.temporalAtRisk function

rescale.stppp function

gridav.lgcpPredict

gridav.lgcpPredict function

seintens.lgcpPredict

seintens.lgcpPredict function

setTxtProgressBar2

set the progress bar

spatialAtRisk.fromXYZ

spatialAtRisk.fromXYZ function

summary.mcmc function

intens.lgcpSimSpatialPlusParameters

intens.lgcpSimSpatialPlusParameters function

showGrid.lgcpPredict

showGrid.lgcpPredict function

temporalAtRisk function

xvals.SpatialGridDataFrame

xvals.SpatialGridDataFrame function

xvals.default function

seintens function

is this a burn-in iteration?

updateAMCMC function

lgcpPredictSpatialINLA

lgcpPredictSpatialINLA function

lgcpPredict function

quantile.lgcpPredict

quantile.lgcpPredict function

yvals.fromXYZ function

print.fromXYZ function

plotExceed function

Population of Welsh counties

initialiseAMCMC.andrieuthomsh

initaliseAMCMC.andrieuthomsh function

lgcpPredictAggregateSpatialPlusPars

lgcpPredictAggregateSpatialPlusPars function

lgcpgrid.array function

GPdrv2 function

MALAlgcpMultitypeSpatial.PlusPars

MALAlgcpMultitypeSpatial.PlusPars function

lgcpgrid.matrix

lgcpgrid.matrix function

GPlist2array function

MonteCarloAverage

MonteCarloAverage function

GAreturnvalue function

discreteWindow function

computeGradtruncSpatioTemporal

computeGradtruncSpatioTemporal function

ginhomAverage function

integerise function

plot.lgcpPredict

plot.lgcpPredict function

lgcpPredictSpatialPlusPars

lgcpPredictSpatialPlusPars function

print.dump2dir function

spatialAtRisk.function

spatialAtRisk.function function

toral.cov.mat function

transblue function

window.lgcpPredict

window.lgcpPredict function

GFfinalise function

PriorSpec function

as.fromXYZ.fromFunction

as.fromXYZ.fromFunction function

SpikedExponentialCovFct

SpikedExponentialCovFct function

as.im.fromFunction

as.im.fromFunction function

as.im.fromXYZ function

as.ppp.stppp function

autocorr function

dump2dir function

cov.interp.fft function

getZmat function

lgcpForecast function

identifygrid function

meanfield.lgcpPredictINLA

meanfield.lgcpPredictINLA function

my.KinhomAverage

my.KinhomAverage function

mstppp function

plotit function

postcov.lgcpPredictSpatialOnlyPlusParameters

postcov.lgcpPredictSpatialOnlyPlusParameters function

plot.lgcpgrid function

showGrid.stppp function

serr.lgcpPredict

serr.lgcpPredict function

postcov.lgcpPredictMultitypeSpatialPlusParameters

postcov.lgcpPredictMultitypeSpatialPlusParameters function

setoutput function

temporalAtRisk.function

temporalAtRisk.function function

zvals.fromXYZ function

touchingowin function

traceplots function

updateAMCMC.constanth

updateAMCMC.constanth function

zvals.default function

spatialAtRisk.default

spatialAtRisk.default function

lgcpPredictSpatial

lgcpPredictSpatial function

GFreturnvalue.nullFunction

GFreturnvalue.nullFunction function

lambdaEst.ppp function

neattable function

mstppp.stppp function

next step of an MCMC chain

nullAverage function

plot.mcmcdiag function

plotExceed.array

plotExceed.array function

rotmat function

segProbs function

target.and.grad.spatial

target.and.grad.spatial function

transgreen function

yvals.lgcpPredict

yvals.lgcpPredict function

print.lgcpPredict

print.lgcpPredict function

spatialAtRisk.SpatialGridDataFrame

spatialAtRisk.SpatialGridDataFrame function

C.diff.single.im

C.diff.single.im function

assigninterp function

as.im.fromSPDF function

blockcircbase function

getZmats function

lgcpInits function

mcmctrace.lgcpPredict

mcmctrace.lgcpPredict function

stapp.list function

varfield.lgcpPredict

varfield.lgcpPredict function

GAupdate function

GAreturnvalue.nullAverage

GAreturnvalue.nullAverage function##'

MALAlgcpSpatial.PlusPars

MALAlgcpSpatial.PlusPars function

aggregateCovariateInfo

aggregateCovariateInfo function

GFinitialise.nullFunction

GFinitialise.nullFunction function

as.list.lgcpgrid

as.list.lgcpgrid function

affine.fromSPDF

affine.fromSPDF function

fftmultiply function

g.diff.single function

getRotation function

getlgcpPredictSpatialINLA

getlgcpPredictSpatialINLA function

addTemporalCovariates

addTemporalCovariates function

lgcpPredictAggregated

lgcpPredictAggregated function

multiply.list function

numCases function

plot.lgcpQuantiles

plot.lgcpQuantiles function

plot.temporalAtRisk

plot.temporalAtRisk function

spatialAtRisk.lgcpgrid

spatialAtRisk.lgcpgrid function

updateAMCMC.andrieuthomsh

updateAMCMC.andrieuthomsh function