Spatio-Temporal Model Estimation


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Documentation for package ‘SpatioTemporal’ version 1.1.9.1

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B C D E F G I L M N P Q R S T U

SpatioTemporal-package Spatio-Temporal Modelling

-- B --

block.mult Deprecated functions, use replacements!
blockMult Multiplication of Block Diagonal Matrix and Vector
boxplot.estCVSTmodel Boxplots for 'estCVSTmodel' object
boxplot.SVDcv Plot and Boxplot cross-validation statistics for 'SVDcv' object

-- C --

c.STmodel Combine Several STmodel/STdata Objects
calc.F.times.X Deprecated functions, use replacements!
calc.FX Compute Matrix Product Bewteen Temporal Trends and a LUR components
calc.FXtF2 Compute Quadratic Form Bewteen Temporal Trends and Sigma B
calc.iS.X Matrix Multiplication with Block Matrices
calc.mu.B Matrix Multiplication with Block Matrices
calc.smooth.trends Deprecated functions, use replacements!
calc.tF.mat.F Deprecated functions, use replacements!
calc.tF.times.mat Deprecated functions, use replacements!
calc.tFX Compute Matrix Product Bewteen Temporal Trends and a Matrix
calc.tFXF Compute Quadratic Form Bewteen Temporal Trends and Sigma nu
calc.X.iS.X Matrix Multiplication with Block Matrices
calcSmoothTrends Smooth Basis Functions for a STdata Object
coef.estCVSTmodel Returns estimated parameters for each CV-group.
coef.estimateSTmodel Returns estimated parameters (and uncertaintes)
combineMesaData Deprecated functions, use replacements!
compute.ltaCV Deprecated functions, use replacements!
computeLTA Computes the Long Term Average for Each Sites.
cond.expectation Deprecated functions, use replacements!
construct.LUR.basis Deprecated functions, use replacements!
construct.ST.basis Deprecated functions, use replacements!
convertCharToDate Convert Character to Dates
create.data.matrix Deprecated functions, use replacements!
create.data.model Deprecated functions, use replacements!
createCV Define Cross-Validation Groups
createDataMatrix Create a Data Matrix
createLUR Add Covariate Fields to 'STdata' Object.
createST Add Covariate Fields to 'STdata' Object.
createSTdata Construct STdata Object
createSTmodel Construct STmodel Object
crossDist Computed the Euclidian Distance Matrix
CVbasics Deprecated functions, use replacements!
CVresiduals.qqnorm Deprecated functions, use replacements!
CVresiduals.scatter Deprecated functions, use replacements!

-- D --

default.LUR.list Deprecated functions, use replacements!
default.ST.list Deprecated functions, use replacements!
defaultList Add Default Elements to Incomplete list
density.mcmcSTmodel Kernel Density Estimation for an 'mcmcSTmodel' Object
detrend.data Deprecated functions, use replacements!
detrendSTdata Removes Temporal Trend from Observations in a 'STdata' Object
dot.prod Deprecated functions, use replacements!
dotProd Computes Inner Product and Squared 2-norm
drop.observations Deprecated functions, use replacements!
dropObservations Drop Observations from a STmodel

-- E --

est.cv.mesa Example of 'estCVSTmodel' and 'predCVSTmodel' structures
est.mesa.model Examples of 'estimateSTmodel' structure
estimate Estimation of the Spatio-Temporal Model
estimate.STmodel Estimation of the Spatio-Temporal Model
estimateBetaFields Regression Estimates of beta-Fields
estimateCV Cross-Validated Estimation and Prediction
estimateCV.STmodel Cross-Validated Estimation and Prediction
evalCovFuns Compute Covariance Function
expandF Expand F

-- F --

fit.mesa.model Deprecated functions, use replacements!

-- G --

gen.gradient Deprecated functions, use replacements!
gen.hessian Deprecated functions, use replacements!
genGradient Compute Finite Difference Gradient and Hessians.
genHessian Compute Finite Difference Gradient and Hessians.
get.params Deprecated functions, use replacements!

-- I --

invCholBlock Computations for Block Diagonal Matrices

-- L --

loglike Deprecated functions, use replacements!
loglike.dim Deprecated functions, use replacements!
loglike.grad Deprecated functions, use replacements!
loglike.hessian Deprecated functions, use replacements!
loglike.naive Deprecated functions, use replacements!
loglike.naive.grad Deprecated functions, use replacements!
loglike.naive.hessian Deprecated functions, use replacements!
loglike.var.names Deprecated functions, use replacements!
loglikeST Compute the Log-likelihood for the Spatio-Temporal Model
loglikeSTdim Dimensions of the STmodel Structure
loglikeSTgetPars Extract Parameters from a Vector
loglikeSTGrad Compute Gradient and Hessian for the Log-likelihood
loglikeSTHessian Compute Gradient and Hessian for the Log-likelihood
loglikeSTnaive Compute the Log-likelihood for the Spatio-Temporal Model
loglikeSTnaiveGrad Compute Gradient and Hessian for the Log-likelihood
loglikeSTnaiveHessian Compute Gradient and Hessian for the Log-likelihood
loglikeSTnames Create Names for Log-likelihood Parameters for STmodel objects

-- M --

make.sigma.B Deprecated functions, use replacements!
make.sigma.B.full Deprecated functions, use replacements!
make.sigma.nu Deprecated functions, use replacements!
make.sigma.nu.cross.cov Deprecated functions, use replacements!
makeCholBlock Computations for Block Diagonal Matrices
makeSigmaB Create Block Covariance Matrix (Equal Block Sizes)
makeSigmaNu Create Block Covariance Matrix (Unequal Block Sizes)
MCMC MCMC Inference of Parameters in the Spatio-Temporal Model
MCMC.mesa.model Example of a 'mcmcSTmodel' structure
MCMC.STmodel MCMC Inference of Parameters in the Spatio-Temporal Model
mesa.data.raw Data used in the examples
mesa.model Example of a 'STmodel' structure

-- N --

namesCovFuns Available covariance functions
norm2 Computes Inner Product and Squared 2-norm

-- P --

parsCovFuns Parameter Names for Covariance Function(s)
plot.density.mcmcSTmodel Plots for an 'density.mcmcSTmodel' object
plot.mcmcSTmodel Plots for an 'mcmcSTmodel' object
plot.predCVSTmodel Plots for 'predictSTmodel' and 'predCVSTmodel' Objects
plot.predictSTmodel Plots for 'predictSTmodel' and 'predCVSTmodel' Objects
plot.STdata Different Plots for 'STdata'/'STmodel' object
plot.STmodel Different Plots for 'STdata'/'STmodel' object
plot.SVDcv Plot and Boxplot cross-validation statistics for 'SVDcv' object
plotCV Deprecated functions, use replacements!
plotMesaData Deprecated functions, use replacements!
plotMonitoringLoc Deprecated functions, use replacements!
plotPrediction Deprecated functions, use replacements!
pred.cv.mesa Example of 'estCVSTmodel' and 'predCVSTmodel' structures
pred.mesa.model Example of a 'predictSTmodel' structure
predict.STmodel Computes Conditional Expectation at Unobserved Locations
predictCV Cross-Validated Estimation and Prediction
predictCV.STmodel Cross-Validated Estimation and Prediction
predictNaive Naive Temporal Predictions
print.estCVSTmodel Print details for 'estCVSTmodel' object
print.estimateSTmodel Print details for 'estimateSTmodel' object
print.mcmcSTmodel Print details for 'mcmcSTmodel' object
print.predCVSTmodel Print details for 'predCVSTmodel' object
print.predictSTmodel Print details for 'predictSTmodel' object
print.STdata Print details for 'STdata' object
print.STmodel Print details for 'STmodel' object
print.summary.estCVSTmodel Print details for 'summary.estCVSTmodel' object
print.summary.mcmcSTmodel Print details for 'summary.mcmcSTmodel' object
print.summary.predCVSTmodel Print details for 'summary.predCVSTmodel' object
print.summary.STdata Print details for 'summary.STdata' object
print.summary.STmodel Print details for 'summary.STmodel' object
print.SVDcv Print details for 'SVDcv' object
printMesaDataNbrObs Deprecated functions, use replacements!
processLocation Internal Function that Extracts Locations
processLUR Internal Function that do Covariate Selection
processST Internal Function that do Covariate Selection

-- Q --

qqnorm.predCVSTmodel QQ-norm for 'STdata'/'STmodel'/'predCVSTmodel' objects
qqnorm.STdata QQ-norm for 'STdata'/'STmodel'/'predCVSTmodel' objects
qqnorm.STmodel QQ-norm for 'STdata'/'STmodel'/'predCVSTmodel' objects

-- R --

remove.ST.mean Deprecated functions, use replacements!
removeSTcovarMean Mean-Centre the Spatio-Temporal Covariate
run.MCMC Deprecated functions, use replacements!

-- S --

scatterPlot Scatter plot
scatterPlot.predCVSTmodel scatterPlot for 'STdata'/'STmodel'/'predCVSTmodel' objects
scatterPlot.STdata scatterPlot for 'STdata'/'STmodel'/'predCVSTmodel' objects
scatterPlot.STmodel scatterPlot for 'STdata'/'STmodel'/'predCVSTmodel' objects
setupSTdataset Deprecated functions, use replacements!
simulate.STmodel Simulate Data from the Spatio-Temporal Model
simulateMesaData Deprecated functions, use replacements!
solveTriBlock Computations for Block Diagonal Matrices
SpatioTemporal Spatio-Temporal Modelling
stCheckClass Test if an object belongs to given class(es).
stCheckCovars Check a data.frame of Covariates
stCheckFields Test if fields exist in an object.
stCheckObs Check an 'obs' data.frame.
stCheckSTcovars Check an Array/List of Spatio-Temporal Covariates
sumLog Sum the Logarithm of (Diagonal) Elements
sumLogDiag Sum the Logarithm of (Diagonal) Elements
summary.estCVSTmodel Computes summary details for 'estCVSTmodel' object
summary.mcmcSTmodel Computes summary details for 'mcmcSTmodel' object
summary.predCVSTmodel Computes summary details for 'predCVSTmodel' object
summary.STdata Computes summary details for 'STdata' object
summary.STmodel Computes summary details for 'STmodel' object
summary.SVDcv Print details for 'SVDcv' object
summaryStatsCV Deprecated functions, use replacements!
SVD.miss Deprecated functions, use replacements!
SVD.smooth Deprecated functions, use replacements!
SVD.smooth.cv Deprecated functions, use replacements!
SVDmiss Missing Data SVD
SVDsmooth Smooth Basis Functions for Data Matrix with Missing Values
SVDsmoothCV Smooth Basis Functions for Data Matrix with Missing Values

-- T --

tstat Deprecated functions, use replacements!

-- U --

updateCovf Update Covariance Functions in 'STmodel' Objects
updateSTdataTrend Update Trend in 'STdata' or 'STmodel' Object
updateTrend Update Trend in 'STdata' or 'STmodel' Object
updateTrend.STdata Update Trend in 'STdata' or 'STmodel' Object
updateTrend.STmodel Update Trend in 'STdata' or 'STmodel' Object