Complete Environment for Bayesian Inference


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Documentation for package ‘LaplacesDemon’ version 13.03.04

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A B C D E G H I J K L M P Q R S T U V

LaplacesDemon-package The LaplacesDemon Package

-- A --

ABB Approximate Bayesian Bootstrap
as.covar Proposal Covariance
as.indicator.matrix Matrix Utility Functions
as.initial.values Initial Values
as.inverse Matrix Utility Functions
as.parm.matrix Matrix Utility Functions
as.parm.names Parameter Names
as.positive.definite Matrix Utility Functions
as.positive.semidefinite Matrix Utility Functions
as.ppc As Posterior Predictive Check
as.symmetric.matrix Matrix Utility Functions

-- B --

BayesFactor Bayes Factor
BayesianBootstrap The Bayesian Bootstrap
BayesTheorem Bayes' Theorem
BMK.Diagnostic BMK Convergence Diagnostic
burnin Burn-in

-- C --

caterpillar.plot Caterpillar Plot
CenterScale Centering and Scaling
cloglog The log-log and complementary log-log functions
Combine Combine Demonoid Objects
Consort Consort with Laplace's Demon
Cov2Cor Matrix Utility Functions
Cov2Prec Precision
CSF Cumulative Sample Function

-- D --

dalaplace Asymmetric Laplace Distribution: Univariate
dallaplace Asymmetric Log-Laplace Distribution
dbern Bernoulli Distribution
dcat Categorical Distribution
ddirichlet Dirichlet Distribution
de.Finetti.Game de Finetti's Game
delicit Prior Elicitation
demonsnacks Demon Snacks Data Set
dhalfcauchy Half-Cauchy Distribution
dhalfnorm Half-Normal Distribution
dhalft Half-t Distribution
dinvbeta Inverse Beta Distribution
dinvchisq (Scaled) Inverse Chi-Squared Distribution
dinvgamma Inverse Gamma Distribution
dinvgaussian Inverse Gaussian Distribution
dinvwishart Inverse Wishart Distribution
dinvwishartc Inverse Wishart Distribution: Cholesky Parameterization
dlaplace Laplace Distribution: Univariate Symmetric
dlaplacep Laplace Distribution: Precision Parameterization
dllaplace Log-Laplace Distribution: Univariate Symmetric
dlnormp Log-Normal Distribution: Precision Parameterization
dmvc Multivariate Cauchy Distribution
dmvcc Multivariate Cauchy Distribution: Cholesky Parameterization
dmvcp Multivariate Cauchy Distribution: Precision Parameterization
dmvcpc Multivariate Cauchy Distribution: Precision-Cholesky Parameterization
dmvl Multivariate Laplace Distribution
dmvlc Multivariate Laplace Distribution: Cholesky Parameterization
dmvn Multivariate Normal Distribution
dmvnc Multivariate Normal Distribution: Cholesky Parameterization
dmvnp Multivariate Normal Distribution: Precision Parameterization
dmvnpc Multivariate Normal Distribution: Precision-Cholesky Parameterization
dmvpe Multivariate Power Exponential Distribution
dmvpec Multivariate Power Exponential Distribution: Cholesky Parameterization
dmvpolya Multivariate Polya Distribution
dmvt Multivariate t Distribution
dmvtc Multivariate t Distribution: Cholesky Parameterization
dmvtp Multivariate t Distribution: Precision Parameterization
dmvtpc Multivariate t Distribution: Precision-Cholesky Parameterization
dnormp Normal Distribution: Precision Parameterization
dnormv Normal Distribution: Variance Parameterization
dpareto Pareto Distribution
dpe Power Exponential Distribution: Univariate Symmetric
dsdlaplace Skew Discrete Laplace Distribution: Univariate
dslaplace Skew-Laplace Distribution: Univariate
dst Student t Distribution: Univariate
dStick Truncated Stick-Breaking Prior Distribution
dstp Student t Distribution: Precision Parameterization
dtrunc Truncated Distributions
dwishart Wishart Distribution
dwishartc Wishart Distribution: Cholesky Parameterization

-- E --

elicit Prior Elicitation
ESS Effective Sample Size due to Autocorrelation
extrunc Truncated Distributions

-- G --

Gelfand.Diagnostic Gelfand's Convergence Diagnostic
Gelman.Diagnostic Gelman and Rubin's MCMC Convergence Diagnostic
Geweke.Diagnostic Geweke's Convergence Diagnostic
GIV Generate Initial Values

-- H --

Hessian Matrix Utility Functions

-- I --

IAT Integrated Autocorrelation Time
Importance Variable Importance
interval Constrain to Interval
invcloglog The log-log and complementary log-log functions
invlogit The logit and inverse-logit functions
invloglog The log-log and complementary log-log functions
is.amodal The Mode(s) of a Vector
is.appeased Appeased
is.bayesfactor Logical Check of Classes
is.bimodal The Mode(s) of a Vector
is.bmk Logical Check of Classes
is.constant Logical Check of a Constant
is.constrained Logical Check of Constraints
is.data Logical Check of Data
is.demonoid Logical Check of Classes
is.demonoid.hpc Logical Check of Classes
is.demonoid.ppc Logical Check of Classes
is.demonoid.val Logical Check of Classes
is.importance Logical Check of Classes
is.juxtapose Logical Check of Classes
is.laplace Logical Check of Classes
is.laplace.ppc Logical Check of Classes
is.model Logical Check of a Model
is.multimodal The Mode(s) of a Vector
is.pmc Logical Check of Classes
is.pmc.ppc Logical Check of Classes
is.pmc.val Logical Check of Classes
is.positive.definite Matrix Utility Functions
is.positive.semidefinite Matrix Utility Functions
is.proper Logical Check of Propriety
is.square.matrix Matrix Utility Functions
is.stationary Logical Check of Stationarity
is.symmetric.matrix Matrix Utility Functions
is.trimodal The Mode(s) of a Vector
is.unimodal The Mode(s) of a Vector

-- J --

joint.density.plot Joint Density Plot
joint.pr.plot Joint Probability Region Plot
Juxtapose Juxtapose MCMC Algorithm Inefficiency

-- K --

KLD Kullback-Leibler Divergence (KLD)
KS.Diagnostic Kolmogorov-Smirnov Convergence Diagnostic

-- L --

LaplaceApproximation Laplace Approximation
LaplacesDemon Laplace's Demon
LaplacesDemon.hpc Laplace's Demon
LaplacesDemon.RAM LaplacesDemon RAM Estimate
Levene.Test Levene's Test
LML Logarithm of the Marginal Likelihood
logadd Math Utility Functions
logit The logit and inverse-logit functions
loglog The log-log and complementary log-log functions
LossMatrix Loss Matrix
lower.triangle Matrix Utility Functions
LPL.interval Lowest Posterior Loss Interval

-- M --

MCSE Monte Carlo Standard Error
MCSS Monte Carlo Standard Error
Mode The Mode(s) of a Vector
Model.Spec.Time Model Specification Time
Modes The Mode(s) of a Vector

-- P --

p.interval Probability Interval
palaplace Asymmetric Laplace Distribution: Univariate
pallaplace Asymmetric Log-Laplace Distribution
partial Math Utility Functions
pbern Bernoulli Distribution
phalfcauchy Half-Cauchy Distribution
phalfnorm Half-Normal Distribution
phalft Half-t Distribution
plaplace Laplace Distribution: Univariate Symmetric
plaplacep Laplace Distribution: Precision Parameterization
pllaplace Log-Laplace Distribution: Univariate Symmetric
plnormp Log-Normal Distribution: Precision Parameterization
plot.bmk Plot Hellinger Distances
plot.demonoid Plot samples from the output of Laplace's Demon
plot.demonoid.hpc Plot samples from the output of Laplace's Demon
plot.demonoid.ppc Plots of Posterior Predictive Checks
plot.importance Plot Variable Importance
plot.juxtapose Plot MCMC Juxtaposition
plot.laplace Plot the output of 'LaplaceApproximation'
plot.laplace.ppc Plots of Posterior Predictive Checks
plot.pmc Plot samples from the output of PMC
plot.pmc.ppc Plots of Posterior Predictive Checks
plotMatrix Plot a Numerical Matrix
PMC Population Monte Carlo
PMC.RAM PMC RAM Estimate
pnormp Normal Distribution: Precision Parameterization
pnormv Normal Distribution: Variance Parameterization
PosteriorChecks Posterior Checks
ppareto Pareto Distribution
ppe Power Exponential Distribution: Univariate Symmetric
Prec2Cov Precision
prec2sd Precision
prec2var Precision
predict.demonoid Posterior Predictive Checks
predict.laplace Posterior Predictive Checks
predict.pmc Posterior Predictive Checks
print.demonoid Print an object of class 'demonoid' to the screen.
print.laplace Print an object of class 'laplace' to the screen.
print.pmc Print an object of class 'pmc' to the screen.
psdlaplace Skew Discrete Laplace Distribution: Univariate
pslaplace Skew-Laplace Distribution: Univariate
pst Student t Distribution: Univariate
pstp Student t Distribution: Precision Parameterization
ptrunc Truncated Distributions

-- Q --

qalaplace Asymmetric Laplace Distribution: Univariate
qallaplace Asymmetric Log-Laplace Distribution
qbern Bernoulli Distribution
qcat Categorical Distribution
qhalfcauchy Half-Cauchy Distribution
qhalfnorm Half-Normal Distribution
qhalft Half-t Distribution
qlaplace Laplace Distribution: Univariate Symmetric
qlaplacep Laplace Distribution: Precision Parameterization
qllaplace Log-Laplace Distribution: Univariate Symmetric
qlnormp Log-Normal Distribution: Precision Parameterization
qnormp Normal Distribution: Precision Parameterization
qnormv Normal Distribution: Variance Parameterization
qpareto Pareto Distribution
qpe Power Exponential Distribution: Univariate Symmetric
qsdlaplace Skew Discrete Laplace Distribution: Univariate
qslaplace Skew-Laplace Distribution: Univariate
qst Student t Distribution: Univariate
qstp Student t Distribution: Precision Parameterization
qtrunc Truncated Distributions

-- R --

ralaplace Asymmetric Laplace Distribution: Univariate
rallaplace Asymmetric Log-Laplace Distribution
rbern Bernoulli Distribution
rcat Categorical Distribution
rdirichlet Dirichlet Distribution
read.matrix Matrix Utility Functions
rhalfcauchy Half-Cauchy Distribution
rhalfnorm Half-Normal Distribution
rhalft Half-t Distribution
rinvbeta Inverse Beta Distribution
rinvchisq (Scaled) Inverse Chi-Squared Distribution
rinvgamma Inverse Gamma Distribution
rinvgaussian Inverse Gaussian Distribution
rinvwishart Inverse Wishart Distribution
rinvwishartc Inverse Wishart Distribution: Cholesky Parameterization
rlaplace Laplace Distribution: Univariate Symmetric
rlaplacep Laplace Distribution: Precision Parameterization
rllaplace Log-Laplace Distribution: Univariate Symmetric
rlnormp Log-Normal Distribution: Precision Parameterization
rmvc Multivariate Cauchy Distribution
rmvcc Multivariate Cauchy Distribution: Cholesky Parameterization
rmvcp Multivariate Cauchy Distribution: Precision Parameterization
rmvcpc Multivariate Cauchy Distribution: Precision-Cholesky Parameterization
rmvl Multivariate Laplace Distribution
rmvlc Multivariate Laplace Distribution: Cholesky Parameterization
rmvn Multivariate Normal Distribution
rmvnc Multivariate Normal Distribution: Cholesky Parameterization
rmvnp Multivariate Normal Distribution: Precision Parameterization
rmvnpc Multivariate Normal Distribution: Precision-Cholesky Parameterization
rmvpe Multivariate Power Exponential Distribution
rmvpec Multivariate Power Exponential Distribution: Cholesky Parameterization
rmvpolya Multivariate Polya Distribution
rmvt Multivariate t Distribution
rmvtc Multivariate t Distribution: Cholesky Parameterization
rmvtp Multivariate t Distribution: Precision Parameterization
rmvtpc Multivariate t Distribution: Precision-Cholesky Parameterization
rnormp Normal Distribution: Precision Parameterization
rnormv Normal Distribution: Variance Parameterization
rpareto Pareto Distribution
rpe Power Exponential Distribution: Univariate Symmetric
rsdlaplace Skew Discrete Laplace Distribution: Univariate
rslaplace Skew-Laplace Distribution: Univariate
rst Student t Distribution: Univariate
rstp Student t Distribution: Precision Parameterization
rtrunc Truncated Distributions
rwishart Wishart Distribution
rwishartc Wishart Distribution: Cholesky Parameterization

-- S --

sd2prec Precision
sd2var Precision
server_Listening Server Listening
SIR Sampling Importance Resampling
Stick Truncated Stick-Breaking
summary.demonoid.ppc Posterior Predictive Check Summary
summary.laplace.ppc Posterior Predictive Check Summary
summary.pmc.ppc Posterior Predictive Check Summary

-- T --

Thin Thin
tr Matrix Utility Functions

-- U --

upper.triangle Matrix Utility Functions

-- V --

Validate Holdout Validation
var2prec Precision
var2sd Precision
vartrunc Truncated Distributions