# Log-Gaussian Cox Process

## Documentation for package ‘lgcp’ version 0.9-1

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.

## Help Pages

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

## -- A --

add.list | add...
affine.fromFunction | affine...
affine.fromSPDF | affine...
affine.fromXYZ | affine...
affine.SpatialPolygonsDataFrame | affine...
affine.stppp | affine...
andrieuthomsh | andrieuthomsh function...
as.fromXYZ | as...
as.fromXYZ.fromFunction | as...
as.im.fromFunction | as...
as.im.fromSPDF | as...
as.im.fromXYZ | as...
as.list.lgcpgrid | as...
as.owin.stapp | as...
as.owinlist | as...
as.owinlist.SpatialPolygonsDataFrame | as...
as.owinlist.stapp | as...
as.ppp.stppp | as...
as.SpatialGridDataFrame | as...
as.SpatialGridDataFrame.fromXYZ | as...
as.stppp | as...
as.stppp.stapp | as...
at | at function...

## -- B --

blockcircbase | blockcircbase function...
bt.scalar | bt...

## -- C --

circulant | circulant function...
circulant.matrix | circulant...
circulant.numeric | circulant...
computeGradtrunc | computeGradtrunc function...
computeGradtruncSpatial | computeGradtruncSpatial function...
computeGradtruncSpatioTemporal | computeGradtruncSpatioTemporal function...
constanth | constanth function...
constantInTime | constantInTime function...
constantInTime.numeric | constantInTime...
constantInTime.stppp | constantInTime...
Cvb | Cvb function...

## -- D --

d.func | d...
density.stppp | density...
diffnorm2 | diffnorm2 function...
dump2dir | dump2dir function...

## -- E --

eigenfrombase | eigenfrombase function...
evallogprobY | evallogprobY function...
exceedProbs | exceedProbs function...
exceedProbsAggregated | exceedProbsAggregated function...
expectation | expectation function...
expectation.lgcpPredict | expectation...
extract | extract function...
extract.lgcpPredict | extract...

## -- F --

fftgrid | fftgrid function...
fftinterpolate | fftinterpolate function...
fftinterpolate.fromFunction | fftinterpolate...
fftinterpolate.fromSPDF | fftinterpolate...
fftinterpolate.fromXYZ | interpolate...

## -- G --

GAfinalise | GAfinalise function...
GAfinalise.MonteCarloAverage | GAfinalise...
GAfinalise.nullAverage | GAfinalise...
GAinitialise | GAinitialise function...
GAinitialise.MonteCarloAverage | GAinitialise...
GAinitialise.nullAverage | GAinitialise...
GammafromY | GammafromY function...
GAreturnvalue | GAreturnvalue function...
GAreturnvalue.MonteCarloAverage | GAreturnvalue...
GAreturnvalue.nullAverage | GAreturnvalue...
GAupdate | GAupdate function...
GAupdate.MonteCarloAverage | GAupdate...
GAupdate.nullAverage | GAupdate...
getCounts | getCounts function...
getRotation | getRotation function...
getRotation.default | getRotation...
getRotation.stppp | getRotation...
GFfinalise | GFfinalise function...
GFfinalise.dump2dir | GFfinalise...
GFfinalise.nullFunction | GFfinalise...
GFinitialise | GFinitialise function...
GFinitialise.dump2dir | GFinitialise...
GFinitialise.nullFunction | GFinitialise...
GFreturnvalue | GFreturnvalue function...
GFreturnvalue.dump2dir | GFreturnvalue...
GFreturnvalue.nullFunction | GFreturnvalue...
GFupdate | GFupdate function...
GFupdate.dump2dir | GFupdate...
GFupdate.nullFunction | GFupdate...
ginhomAverage | ginhomAverage function...
grad.comp | grad...
gridav | gridav function...
gridav.lgcpPredict | gridav...
gridfun | gridfun function...
gridfun.lgcpPredict | gridfun...
gridInWindow | gridInWindow function...
gu | gu function...

## -- H --

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

## -- I --

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

## -- K --

KinhomAverage | KinhomAverage function...

## -- L --

lambdaEst | lambdaEst function...
lgcp | lgcp...
lgcpForecast | lgcpForecast function...
lgcpgrid | lgcpgrid function...
lgcpgrid.array | lgcpgrid...
lgcpgrid.list | lgcpgrid...
lgcpgrid.matrix | lgcpgrid...
lgcppars | lgcppars function...
lgcpPredict | lgcpPredict function...
lgcpPredictAggregated | lgcpPredictAggregated function...
lgcpPredictSpatial | lgcpPredictSpatial function...
lgcpSim | lgcpSim function...
lgcpSimSpatial | lgcpSimSpatial function...
loc2poly | loc2poly function...
loop.mcmc | loop over an iterator...

## -- M --

MALAlgcp | MALAlgcp function...
MALAlgcpSpatial | MALAlgcpSpatial 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...
meanfield | meanfield function...
meanfield.lgcpPredict | meanfield...
meanselect | meanselect function...
MonteCarloAverage | MonteCarloAverage function...
muEst | muEst function...
multiply.list | multiply...

## -- N --

neattable | neattable function...
nextStep | next step of an MCMC chain...
normsq | normsq function...
nullAverage | nullAverage function...
nullFunction | nullFunction function...

## -- P --

plot.fromSPDF | plot...
plot.fromXYZ | plot...
plot.lgcpgrid | plot...
plot.lgcpPredict | plot...
plot.lgcpQuantiles | plot...
plot.mcmcdiag | plot...
plot.stppp | plot...
plot.temporalAtRisk | plot...
plotExceed | plotExceed function...
plotExceed.array | plotExceed...
plotExceed.lgcpPredict | plotExceed...
print.dump2dir | print...
print.fromFunction | print...
print.fromSPDF | print...
print.fromXYZ | print...
print.gridaverage | print...
print.lgcpgrid | print...
print.lgcpPredict | print...
print.mcmc | print...
print.stapp | print...
print.stppp | print...
print.temporalAtRisk | print...
proposal.means | proposal...

## -- Q --

quantile.lgcpgrid | quantile...
quantile.lgcpPredict | quantile...

## -- R --

rescale.stppp | rescale...
resetLoop | reset iterator...
roteffgain | roteffgain function...
rotmat | rotmat function...
rr | rr function...
rr.lgcpPredict | rr...

## -- S --

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

## -- T --

target.and.grad | target...
target.and.grad.spatial | target...
target.and.grad.spatiotemporal | target...
temporalAtRisk | temporalAtRisk function...
temporalAtRisk.function | temporalAtRisk...
temporalAtRisk.numeric | temporalAtRisk...
thetaEst | thetaEst function...
toral.cov.mat | toral...
txtProgressBar2 | txtProgressBar2

## -- U --

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

## -- V --

varfield | varfield function...
varfield.lgcpPredict | varfield...

## -- W --

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

## -- X --

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

## -- Y --

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

## -- Z --

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

## -- misc --

"[.stppp" | Extract...