mcmc-0.6.2.5: Sample from a posterior using Markov chain Monte Carlo

Index

>$<Mcmc.Monitor.Parameter, Mcmc.Monitor.ParameterBatch, Mcmc
@~Mcmc.Proposal, Mcmc
aAutoTuneMcmc.Algorithm
AcceptanceMcmc.Acceptance
acceptanceMcmc.Chain.Chain
AcceptanceRateMcmc.Acceptance
acceptanceRateMcmc.Acceptance
acceptanceRatesMcmc.Acceptance
aCloseMonitorsMcmc.Algorithm
aExecuteMonitorsMcmc.Algorithm
aIsInValidStateMcmc.Algorithm
aIterateMcmc.Algorithm
aIterationMcmc.Algorithm
AlgorithmMcmc.Algorithm
AllProposalsMcmc.Cycle
AnalysisName 
1 (Type/Class)Mcmc.Settings, Mcmc
2 (Data Constructor)Mcmc.Settings, Mcmc
aNameMcmc.Algorithm
aOpenMonitorsMcmc.Algorithm
aResetAcceptanceMcmc.Algorithm
aSaveMcmc.Algorithm
aStdMonitorHeaderMcmc.Algorithm
aSummarizeCycleMcmc.Algorithm
autoTuneCycleMcmc.Cycle
AuxiliaryTuningFunctionMcmc.Proposal
AuxiliaryTuningParametersMcmc.Proposal
BatchSizeMcmc.Monitor
betaMcmc.Proposal.Simplex, Mcmc
burnInIterationsMcmc.Settings, Mcmc
BurnInSettingsMcmc.Settings, Mcmc
BurnInWithAutoTuningMcmc.Settings, Mcmc
BurnInWithCustomAutoTuningMcmc.Settings, Mcmc
BurnInWithoutAutoTuningMcmc.Settings, Mcmc
ccProposalsMcmc.Cycle
Chain 
1 (Type/Class)Mcmc.Chain.Chain
2 (Data Constructor)Mcmc.Chain.Chain
chainIdMcmc.Chain.Chain
closeEnvironmentMcmc.Environment
ContinueMcmc.Settings, Mcmc
createProposalMcmc.Proposal
CycleMcmc.Cycle, Mcmc
cycleMcmc.Chain.Chain
cycleFromListMcmc.Cycle, Mcmc
DebugMcmc.Logger, Mcmc.Settings, Mcmc
defaultTuningFunctionWithMcmc.Proposal
DimensionMcmc.Statistics.Types, Mcmc
dirichletMcmc.Proposal.Simplex, Mcmc
emptyAMcmc.Acceptance
Environment 
1 (Type/Class)Mcmc.Environment
2 (Data Constructor)Mcmc.Environment
ExecutionModeMcmc.Settings, Mcmc
ExpMcmc
exponentialMcmc.Prior, Mcmc
FailMcmc.Settings, Mcmc
FastProposalsMcmc.Cycle
freezeTMcmc.Chain.Trace
fromAcceptanceMcmc.Acceptance
fromAnalysisNameMcmc.Settings, Mcmc
fromIterationsMcmc.Settings, Mcmc
fromMHGMcmc.Algorithm.MHG, Mcmc
fromNChainsMcmc.Algorithm.MC3, Mcmc
fromNPointsMcmc.MarginalLikelihood, Mcmc
fromNSwapsMcmc.Algorithm.MC3, Mcmc
fromPDescriptionMcmc.Proposal
fromPNameMcmc.Proposal, Mcmc
fromPWeightMcmc.Proposal, Mcmc
fromSavedChainMcmc.Chain.Save
fromSavedChainUnsafeMcmc.Chain.Save
fromSwapPeriodMcmc.Algorithm.MC3, Mcmc
gammaMcmc.Prior, Mcmc
gammaMeanOneMcmc.Prior, Mcmc
gammaMeanVarianceMcmc.Prior, Mcmc
gammaMeanVarianceToShapeScaleMcmc.Prior, Mcmc
gammaShapeScaleToMeanVarianceMcmc.Prior, Mcmc
generatorMcmc.Chain.Chain
genericContinuousMcmc.Proposal.Generic
genericDiscreteMcmc.Proposal.Generic
getAnalysisNameMcmc.Settings, Mcmc
getExecutionModeMcmc.Settings, Mcmc
getLockMcmc.Logger
getLogHandlesMcmc.Logger
getLogModeMcmc.Logger
getMonitorBatchSizeMcmc.Monitor
getOptimalRateMcmc.Proposal
getStartingTimeMcmc.Logger
getVerbosityMcmc.Logger
GradientMcmc.Proposal.Hamiltonian, Mcmc
greaterThanMcmc.Prior, Mcmc
hamiltonianMcmc.Proposal.Hamiltonian, Mcmc
HasAnalysisNameMcmc.Settings, Mcmc
HasExecutionModeMcmc.Settings, Mcmc
HasLockMcmc.Logger
HasLogHandlesMcmc.Logger
HasLogModeMcmc.Logger
HasStartingTimeMcmc.Logger
HasVerbosityMcmc.Logger
headTMcmc.Chain.Trace
hFromVectorWithMcmc.Proposal.Hamiltonian, Mcmc
hGradientMcmc.Proposal.Hamiltonian, Mcmc
hLeapfrogScalingFactorMcmc.Proposal.Hamiltonian, Mcmc
hLeapfrogTrajectoryLengthMcmc.Proposal.Hamiltonian, Mcmc
hMassesMcmc.Proposal.Hamiltonian, Mcmc
hMaybeValidateMcmc.Proposal.Hamiltonian, Mcmc
HNoTuneLeapfrogMcmc.Proposal.Hamiltonian, Mcmc
HNoTuneMassesMcmc.Proposal.Hamiltonian, Mcmc
hSampleMcmc.Proposal.Hamiltonian, Mcmc
HSettings 
1 (Type/Class)Mcmc.Proposal.Hamiltonian, Mcmc
2 (Data Constructor)Mcmc.Proposal.Hamiltonian, Mcmc
hToVectorMcmc.Proposal.Hamiltonian, Mcmc
HTune 
1 (Type/Class)Mcmc.Proposal.Hamiltonian, Mcmc
2 (Data Constructor)Mcmc.Proposal.Hamiltonian, Mcmc
hTuneMcmc.Proposal.Hamiltonian, Mcmc
HTuneAllMassesMcmc.Proposal.Hamiltonian, Mcmc
HTuneDiagonalMassesOnlyMcmc.Proposal.Hamiltonian, Mcmc
HTuneLeapfrog 
1 (Type/Class)Mcmc.Proposal.Hamiltonian, Mcmc
2 (Data Constructor)Mcmc.Proposal.Hamiltonian, Mcmc
HTuneMassesMcmc.Proposal.Hamiltonian, Mcmc
InfoMcmc.Logger, Mcmc.Settings, Mcmc
initializeEnvironmentMcmc.Environment
InitialStateMcmc.Chain.Chain
iterationMcmc.Chain.Chain
IterationModeMcmc.Cycle
Iterations 
1 (Type/Class)Mcmc.Settings, Mcmc
2 (Data Constructor)Mcmc.Settings, Mcmc
JacobianMcmc.Proposal
JacobianFunctionMcmc.Proposal, Mcmc
KernelRatioMcmc.Proposal
LeapfrogScalingFactorMcmc.Proposal.Hamiltonian, Mcmc
LeapfrogTrajectoryLengthMcmc.Proposal.Hamiltonian, Mcmc
lengthTMcmc.Chain.Trace
lessThanMcmc.Prior, Mcmc
liftProposalMcmc.Proposal, Mcmc
liftProposalWithMcmc.Proposal, Mcmc
LikelihoodMcmc.Likelihood, Mcmc
likelihoodMcmc.Chain.Link
LikelihoodFunctionMcmc.Likelihood, Mcmc
likelihoodFunctionMcmc.Chain.Chain
LikelihoodFunctionGMcmc.Likelihood, Mcmc
LikelihoodGMcmc.Likelihood, Mcmc
Link 
1 (Type/Class)Mcmc.Chain.Link
2 (Data Constructor)Mcmc.Chain.Link
linkMcmc.Chain.Chain
lnMcmc
LogMcmc
logDebugBMcmc.Logger
logDebugSMcmc.Logger
LogFileOnlyMcmc.Logger, Mcmc.Settings, Mcmc
logGammaGMcmc.Internal.Gamma
LoggerMcmc.Logger
logHandlesMcmc.Environment
logInfoBMcmc.Logger
logInfoEndTimeMcmc.Logger
logInfoHeaderMcmc.Logger
logInfoSMcmc.Logger
logInfoStartingTimeMcmc.Logger
LogModeMcmc.Logger, Mcmc.Settings, Mcmc
logNormalMcmc.Prior, Mcmc
logOutBMcmc.Logger
LogStdOutAndFileMcmc.Logger, Mcmc.Settings, Mcmc
LogStdOutOnlyMcmc.Logger, Mcmc.Settings, Mcmc
logWarnBMcmc.Logger
logWarnSMcmc.Logger
LowerBoundaryMcmc.Statistics.Types, Mcmc
MarginalLikelihoodMcmc.MarginalLikelihood, Mcmc
marginalLikelihoodMcmc.MarginalLikelihood, Mcmc
MassesMcmc.Proposal.Hamiltonian, Mcmc
mBatchesMcmc.Monitor
mbpFuncMcmc.Monitor.ParameterBatch, Mcmc
mbpNameMcmc.Monitor.ParameterBatch, Mcmc
MC3 
1 (Type/Class)Mcmc.Algorithm.MC3, Mcmc
2 (Data Constructor)Mcmc.Algorithm.MC3, Mcmc
mc3Mcmc.Algorithm.MC3, Mcmc
mc3GeneratorMcmc.Algorithm.MC3, Mcmc
mc3IterationMcmc.Algorithm.MC3, Mcmc
mc3LoadMcmc.Algorithm.MC3, Mcmc
mc3MHGChainsMcmc.Algorithm.MC3, Mcmc
mc3NChainsMcmc.Algorithm.MC3, Mcmc
mc3NSwapsMcmc.Algorithm.MC3, Mcmc
mc3ReciprocalTemperaturesMcmc.Algorithm.MC3, Mcmc
mc3SaveMcmc.Algorithm.MC3, Mcmc
MC3Settings 
1 (Type/Class)Mcmc.Algorithm.MC3, Mcmc
2 (Data Constructor)Mcmc.Algorithm.MC3, Mcmc
mc3SettingsMcmc.Algorithm.MC3, Mcmc
mc3SwapAcceptanceMcmc.Algorithm.MC3, Mcmc
mc3SwapPeriodMcmc.Algorithm.MC3, Mcmc
mCloseMcmc.Monitor
mcmcMcmc.Mcmc, Mcmc
mcmcContinueMcmc.Mcmc, Mcmc
MeanMcmc.Statistics.Types, Mcmc
mExecMcmc.Monitor
mFilesMcmc.Monitor
MHG 
1 (Type/Class)Mcmc.Algorithm.MHG, Mcmc
2 (Data Constructor)Mcmc.Algorithm.MHG, Mcmc
mhgMcmc.Algorithm.MHG, Mcmc
mhgAcceptMcmc.Algorithm.MHG, Mcmc
MHGChainsMcmc.Algorithm.MC3, Mcmc
mhgLoadMcmc.Algorithm.MHG, Mcmc
mhgLoadUnsafeMcmc.Algorithm.MHG, Mcmc
MHGRatioMcmc.Algorithm.MHG, Mcmc
mhgSaveMcmc.Algorithm.MHG, Mcmc
MLAlgorithmMcmc.MarginalLikelihood, Mcmc
mlAlgorithmMcmc.MarginalLikelihood, Mcmc
mlAnalysisNameMcmc.MarginalLikelihood, Mcmc
mlExecutionModeMcmc.MarginalLikelihood, Mcmc
mlInitialBurnInMcmc.MarginalLikelihood, Mcmc
mlIterationsMcmc.MarginalLikelihood, Mcmc
mlLogModeMcmc.MarginalLikelihood, Mcmc
mlNPointsMcmc.MarginalLikelihood, Mcmc
mlPointBurnInMcmc.MarginalLikelihood, Mcmc
MLSettings 
1 (Type/Class)Mcmc.MarginalLikelihood, Mcmc
2 (Data Constructor)Mcmc.MarginalLikelihood, Mcmc
mlVerbosityMcmc.MarginalLikelihood, Mcmc
Monitor 
1 (Type/Class)Mcmc.Monitor, Mcmc
2 (Data Constructor)Mcmc.Monitor, Mcmc
monitorMcmc.Chain.Chain
MonitorBatchMcmc.Monitor, Mcmc
monitorBatchMcmc.Monitor, Mcmc
monitorBatchMeanMcmc.Monitor.ParameterBatch, Mcmc
monitorBatchMeanEMcmc.Monitor.ParameterBatch, Mcmc
monitorBatchMeanFMcmc.Monitor.ParameterBatch, Mcmc
monitorDoubleMcmc.Monitor.Parameter, Mcmc
monitorDoubleEMcmc.Monitor.Parameter, Mcmc
monitorDoubleFMcmc.Monitor.Parameter, Mcmc
MonitorFileMcmc.Monitor, Mcmc
monitorFileMcmc.Monitor, Mcmc
monitorIntMcmc.Monitor.Parameter, Mcmc
MonitorParameter 
1 (Type/Class)Mcmc.Monitor.Parameter, Mcmc
2 (Data Constructor)Mcmc.Monitor.Parameter, Mcmc
MonitorParameterBatch 
1 (Type/Class)Mcmc.Monitor.ParameterBatch, Mcmc
2 (Data Constructor)Mcmc.Monitor.ParameterBatch, Mcmc
MonitorStdOutMcmc.Monitor, Mcmc
monitorStdOutMcmc.Monitor, Mcmc
mOpenMcmc.Monitor
mpFuncMcmc.Monitor.Parameter, Mcmc
mpNameMcmc.Monitor.Parameter, Mcmc
msHeaderMcmc.Monitor
mStdOutMcmc.Monitor
NChains 
1 (Type/Class)Mcmc.Algorithm.MC3, Mcmc
2 (Data Constructor)Mcmc.Algorithm.MC3, Mcmc
negativeMcmc.Prior, Mcmc
noAuxiliaryTuningFunctionMcmc.Proposal
NoBurnInMcmc.Settings, Mcmc
noLikelihoodMcmc.Likelihood, Mcmc
noPriorMcmc.Prior, Mcmc
normalMcmc.Prior, Mcmc
NoSaveMcmc.Settings, Mcmc
NoTuneMcmc.Proposal, Mcmc
noTuningFunctionMcmc.Proposal
NPoints 
1 (Type/Class)Mcmc.MarginalLikelihood, Mcmc
2 (Data Constructor)Mcmc.MarginalLikelihood, Mcmc
NSwaps 
1 (Type/Class)Mcmc.Algorithm.MC3, Mcmc
2 (Data Constructor)Mcmc.Algorithm.MC3, Mcmc
openWithExecutionModeMcmc.Settings, Mcmc
OrderMcmc.Cycle, Mcmc
outLockMcmc.Environment
OverwriteMcmc.Settings, Mcmc
ParallelMcmc.Settings, Mcmc
ParallelizationModeMcmc.Settings, Mcmc
PDescription 
1 (Type/Class)Mcmc.Proposal
2 (Data Constructor)Mcmc.Proposal
PDimension 
1 (Type/Class)Mcmc.Proposal
2 (Data Constructor)Mcmc.Proposal
PDimensionUnknownMcmc.Proposal
PeriodMcmc.Monitor
PFastMcmc.Proposal
PName 
1 (Type/Class)Mcmc.Proposal, Mcmc
2 (Data Constructor)Mcmc.Proposal, Mcmc
poissonMcmc.Prior, Mcmc
positiveMcmc.Prior, Mcmc
PosteriorMcmc.Posterior, Mcmc
PosteriorFunctionMcmc.Posterior, Mcmc
PosteriorFunctionGMcmc.Posterior, Mcmc
PosteriorGMcmc.Posterior, Mcmc
prDescriptionMcmc.Proposal
prDimensionMcmc.Proposal
prepareProposalsMcmc.Cycle
PriorMcmc.Prior, Mcmc
priorMcmc.Chain.Link
PriorFunctionMcmc.Prior, Mcmc
priorFunctionMcmc.Chain.Chain
PriorFunctionGMcmc.Prior, Mcmc
PriorGMcmc.Prior, Mcmc
prNameMcmc.Proposal
product'Mcmc.Prior, Mcmc
Proposal 
1 (Type/Class)Mcmc.Proposal, Mcmc
2 (Data Constructor)Mcmc.Proposal
proposalHeaderMcmc.Proposal
proposalHLineMcmc.Cycle
ProposalSimpleMcmc.Proposal
prSimpleMcmc.Proposal
prSpeedMcmc.Proposal
prTunerMcmc.Proposal
prWeightMcmc.Proposal
PSlowMcmc.Proposal
PSpecialMcmc.Proposal
PSpeedMcmc.Proposal
pushAMcmc.Acceptance
pushTMcmc.Chain.Trace
PWeightMcmc.Proposal, Mcmc
pWeightMcmc.Proposal, Mcmc
QuietMcmc.Logger, Mcmc.Settings, Mcmc
RandomOMcmc.Cycle, Mcmc
RandomReversibleOMcmc.Cycle, Mcmc
RateMcmc.Statistics.Types, Mcmc
ReciprocalTemperaturesMcmc.Algorithm.MC3, Mcmc
renderDurationMcmc.Monitor.Time
renderDurationSMcmc.Monitor.Time
renderLogMcmc.Monitor.Log
renderTimeMcmc.Monitor.Time
replicateTMcmc.Chain.Trace
resetAMcmc.Acceptance
sAnalysisNameMcmc.Settings, Mcmc
SaveMcmc.Settings, Mcmc
savedAcceptanceMcmc.Chain.Save
SavedChain 
1 (Type/Class)Mcmc.Chain.Save
2 (Data Constructor)Mcmc.Chain.Save
savedIdMcmc.Chain.Save
savedIterationMcmc.Chain.Save
savedLinkMcmc.Chain.Save
savedSeedMcmc.Chain.Save
savedTraceMcmc.Chain.Save
savedTuningParametersMcmc.Chain.Save
SaveModeMcmc.Settings, Mcmc
sBurnInMcmc.Settings, Mcmc
ScaleMcmc.Statistics.Types, Mcmc
scaleMcmc.Proposal.Scale, Mcmc
scaleBactrianMcmc.Proposal.Bactrian, Mcmc
scaleContrarilyMcmc.Proposal.Scale, Mcmc
scaleUnbiasedMcmc.Proposal.Scale, Mcmc
SequentialMcmc.Settings, Mcmc
SequentialOMcmc.Cycle, Mcmc
SequentialReversibleOMcmc.Cycle, Mcmc
setOrderMcmc.Cycle, Mcmc
Settings 
1 (Type/Class)Mcmc.Settings, Mcmc
2 (Data Constructor)Mcmc.Settings, Mcmc
settingsMcmc.Environment
settingsCheckMcmc.Settings, Mcmc
settingsLoadMcmc.Settings, Mcmc
settingsPrettyPrintMcmc.Settings, Mcmc
settingsSaveMcmc.Settings, Mcmc
sExecutionModeMcmc.Settings, Mcmc
ShapeMcmc.Statistics.Types, Mcmc
simpleMonitorMcmc.Monitor, Mcmc
SimplexMcmc.Proposal.Simplex, Mcmc
simplexFromVectorMcmc.Proposal.Simplex, Mcmc
simplexUniformMcmc.Proposal.Simplex, Mcmc
sIterationsMcmc.Settings, Mcmc
SizeMcmc.Statistics.Types, Mcmc
slideMcmc.Proposal.Slide, Mcmc
slideBactrianMcmc.Proposal.Bactrian, Mcmc
slideContrarilyMcmc.Proposal.Slide, Mcmc
slideSymmetricMcmc.Proposal.Slide, Mcmc
slideUniformSymmetricMcmc.Proposal.Slide, Mcmc
sLogModeMcmc.Settings, Mcmc
sParallelizationModeMcmc.Settings, Mcmc
SpikeParameterMcmc.Proposal.Bactrian
sSaveModeMcmc.Settings, Mcmc
StandardDeviationMcmc.Statistics.Types, Mcmc
startMcmc.Chain.Chain
startingTimeMcmc.Environment
stateMcmc.Chain.Link
SteppingStoneSamplingMcmc.MarginalLikelihood, Mcmc
sTraceLengthMcmc.Settings, Mcmc
summarizeCycleMcmc.Cycle
summarizeProposalMcmc.Proposal
sVerbosityMcmc.Settings, Mcmc
SwapPeriod 
1 (Type/Class)Mcmc.Algorithm.MC3, Mcmc
2 (Data Constructor)Mcmc.Algorithm.MC3, Mcmc
takeTMcmc.Chain.Trace
tAuxiliaryTuningFunctionMcmc.Proposal
tAuxiliaryTuningParametersMcmc.Proposal
tGetSimpleProposalMcmc.Proposal
thawTMcmc.Chain.Trace
ThermodynamicIntegrationMcmc.MarginalLikelihood, Mcmc
toSavedChainMcmc.Chain.Save
toVectorMcmc.Proposal.Simplex, Mcmc
TraceMcmc.Chain.Trace
traceMcmc.Chain.Chain
TraceAutoMcmc.Settings, Mcmc
TraceLengthMcmc.Settings, Mcmc
TraceMinimumMcmc.Settings, Mcmc
transformKeysAMcmc.Acceptance
tTuningFunctionMcmc.Proposal
tTuningParameterMcmc.Proposal
Tune 
1 (Type/Class)Mcmc.Proposal, Mcmc
2 (Data Constructor)Mcmc.Proposal, Mcmc
Tuner 
1 (Type/Class)Mcmc.Proposal
2 (Data Constructor)Mcmc.Proposal
tuneWithTuningParametersMcmc.Proposal
TuningFunctionMcmc.Proposal
TuningParameterMcmc.Proposal
tuningParameterMaxMcmc.Proposal
tuningParameterMinMcmc.Proposal
uniformMcmc.Prior, Mcmc
UpperBoundaryMcmc.Statistics.Types, Mcmc
ValidateMcmc.Proposal.Hamiltonian, Mcmc
ValuesMcmc.Proposal.Hamiltonian, Mcmc
VarianceMcmc.Statistics.Types, Mcmc
VerbosityMcmc.Logger, Mcmc.Settings, Mcmc
WarnMcmc.Logger, Mcmc.Settings, Mcmc