# Sequential Parameter Optimization Toolbox

## Documentation for package ‘SPOT’ version 2.11.14

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

B C D E F G H I M N O P R S T V W

SPOT-package | Sequential Parameter Optimization Toolbox

## -- B --

buildBO | Bayesian Optimization Model Interface
buildCVModel | buildCVModel
buildEnsembleStack | Ensemble: Stacking
buildGaussianProcess | Gaussian Process Model Interface
buildKriging | Build Kriging Model
buildKrigingDACE | Build DACE model
buildLasso | Lasso Model Interface
buildLM | Linear Model Interface
buildLOESS | Build LOESS Model
buildPCA | buildPCA
buildRandomForest | Random Forest Interface
buildRanger | ranger Interface
buildrsdummy | Build random search dummy model
buildRSM | Build Response Surface Model
buildTreeModel | buildTreeModel

## -- C --

checkArrival | checkArrival
checkFeasibilityNlopGnIngres | Check feasibility for NLOPT_GN_ISRES
code2nat | Transform coded values to natural values

## -- D --

dataGasSensor | Gas Sensor Data
descentSpotRSM | Descent RSM model
designLHD | Latin Hypercube Design Generator
designUniformRandom | Uniform Design Generator
diff0 | diff0
doParallel | Parallel execution of code, dependent on the operating system

## -- E --

expectedImprovement | Expected Improvement

## -- F --

funBard | funBard (No. 14, More No. 8)
funBeale | funBeale (No.11, More No. 5)
funBox3d | funbox3D (No. 18, More No. 12)
funBranin | funBranin (No. 1)
funBrownBs | funbrownBs (No. 10, More No. 4)
funCosts | funCosts
funCyclone | Objective function - Cyclone Simulation: Barth/Muschelknautz
funError | funError
funFreudRoth | funFreudRoth (No. 8, More No. 2)
funGauss | funGauss (No. 15, More No. 9)
funGoldsteinPrice | Goldstein-Price Test Function (No. 5)
funGulf | funGulf (No.17, More No. 11)
funHelical | funHelical (No. 13, More No. 7)
funIshigami | Ishigami Test Function (No. 7)
funJennSamp | funJennSamp (No. 12, More No 6)
funMeyer | funMeyer (No. 16, More No. 10)
funMoo | funMoo
funNoise | funNoise
funOptimLecture | funOptimLecture
funPowellBs | funPowellBs (No. 9, More No. 3)
funPowellS | funPowellS (No. 19, More No. 13)
funRosen | funRosen (No. 2, More No. 1)
funRosen2 | funRosen2 (No. 2a)
funShiftedSphere | funShiftedSphere (No. 4)
funSoblev99 | Sobol and Levitan Test Function (No. 6)
funSphere | funSphere (No. 3)
funSring | funSring

## -- G --

getCosts | getCosts
getMultiStartPoints | Get Multi Start Points
getNatDesignFromCoded | Get natural parameter values from coded +-1 representation
getPerformanceStats | get performance stats
getPositions | get impute positions
getPower | getPower
getReplicates | get number of replicates
getSampleSize | getSampleSize

## -- H --

handleNAsKrigingWorst | handleNAsKrigingWorst
handleNAsMax | handleNAsMax
handleNAsMean | handleNAsMean

## -- I --

imputeY | Impute NAs and Inf in y
infillEI | Expected Improvement Infill Criterion
infillExpectedImprovement | infillExpectedImprovement
init_ring | init_ring

## -- M --

makeMoreFunList | makeMoreFunList
makeSpotFunList | makeSpotFunList

## -- N --

normalizeMatrix | Normalize design matrix
normalizeMatrix2 | Normalize design 2

## -- O --

obj.plgpEI | Wrapper for Expected improvement (Gramacy)
objectiveFunctionEvaluation | objectiveFunctionEvaluation Objective Function Evaluation
ocbaRanking | ocbaRanking
optimDE | Minimization by Differential Evolution
optimES | Evolution Strategy
optimGenoud | Minimization by GENetic Optimization Using Derivatives
optimLagp | Interface to minimization based on Gramacy's lagp package
optimLBFGSB | Minimization by L-BFGS-B
optimLHD | Minimization by Latin Hypercube Sampling
optimNLOPTR | optimNLOPTR. Minimization by NLOPT
optimRSfun | Random search surrogate-optimizer

## -- P --

perceptron | perceptron
plgpEI | Expected improvement (Gramacy)
plot.spotSeverity | Plot method for spotSeverity
plotBestObj | Plot Best Objective Value
plotData | Interpolated plot
plotFunction | Surface plot of a function
plotModel | Surface plot of a model
plotPCA | plotPCA
plotPCAvariance | plotPCAvariance
predict.cvModel | predict.cvModel
predict.spotBOModel | Prediction method for bayesian optimization model
prepareBestObjectiveVal | Preprocess y Values to Plot Best Objective Value

## -- R --

repeatsOCBA | Optimal Computing Budget Allocation
resBench01 | result from the vignette benchmark
resSpot | S-Ring Simulation Data Obtained With SPOT
resSpot2 | S-Ring Simulation Data Obtained With SPOT
ring | ring
runOptim | runOptim
runSpotBench | runSpotBench

## -- S --

sann2spot | Interface SANN to SPOT
satter | Satterthwaite Function
simulate.kriging | Kriging Simulation
simulateFunction | simulateFunction
SPOT | Sequential Parameter Optimization Toolbox
spot | spot
spotAlgEs | Evolution Strategy Implementation
spotCleanup | Clean up
spotControl | spotControl
spotLoop | Sequential Parameter Optimization Main Loop
spotPlotErrors | spotPlotErrors
spotPlotPower | spotPlotPower
spotPlotSeverityBasic | spotPlotSeverityBasic
spotPlotTest | spotPlotTest
spotPower | spotPower
spotSeverity | spotSeverity
spotSeverityBasic | spotSeverityBasic
sring | sring
sringRes1 | S-Ring Simulation Data
sringRes2 | S-Ring Simulation Data
sringRes3 | S-Ring Simulation Data

## -- T --

thetaNugget | thetaNugget
thetaNuggetGradient | thetaNuggetGradient
transformX | Transform input

## -- V --

vmessage | formatted output dependent on verbosity

## -- W --

wrapBatchTools | wrapBatchTools
wrapFunction | Function Evaluation Wrapper
wrapFunctionParallel | Parallelized Function Evaluation Wrapper
wrapSystemCommand | wrapSystemCommand