# Complete Environment for Bayesian Inference

## Help Pages

 LaplacesDemon-package Complete Environment for Bayesian Inference

## -- A --

 ABB Approximate Bayesian Bootstrap AcceptanceRate Acceptance Rate 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 BigData Big Data Blocks Blocks 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 cond.plot Conditional Plots Consort Consort with Laplace's Demon Cov2Cor Matrix Utility Functions Cov2Prec Precision CovEstim Matrix Utility Functions CSF Cumulative Sample Function

## -- D --

 dalaplace Asymmetric Laplace Distribution: Univariate dallaplace Asymmetric Log-Laplace Distribution daml Asymmetric Multivariate Laplace Distribution dbern Bernoulli Distribution dcat Categorical Distribution dcrmrf Continuous Relaxation of a Markov Random Field Distribution ddirichlet Dirichlet Distribution de.Finetti.Game de Finetti's Game deburn De-Burn delicit Prior Elicitation demonchoice Demon Choice Data Set demonfx Demon FX Data Set demonsessions Demon Sessions Data Set demonsnacks Demon Snacks Data Set demontexas Demon Space-Time Data Set dgpd Generalized Pareto Distribution dgpois Generalized Poisson Distribution dhalfcauchy Half-Cauchy Distribution dhalfnorm Half-Normal Distribution dhalft Half-t Distribution dhs Horseshoe Distribution dhuangwand Huang-Wand Distribution dhuangwandc Huang-Wand Distribution dhyperg Hyperprior-g Prior and Zellner's g-Prior dinvbeta Inverse Beta Distribution dinvchisq (Scaled) Inverse Chi-Squared Distribution dinvgamma Inverse Gamma Distribution dinvgaussian Inverse Gaussian Distribution dinvmatrixgamma Inverse Matrix Gamma Distribution dinvwishart Inverse Wishart Distribution dinvwishartc Inverse Wishart Distribution: Cholesky Parameterization dlaplace Laplace Distribution: Univariate Symmetric dlaplacem Mixture of Laplace Distributions dlaplacep Laplace Distribution: Precision Parameterization dlasso LASSO Distribution dllaplace Log-Laplace Distribution: Univariate Symmetric dlnormp Log-Normal Distribution: Precision Parameterization dmatrixgamma Matrix Gamma Distribution dmatrixnorm Matrix Normal Distribution 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 dnorminvwishart Normal-Inverse-Wishart Distribution dnormlaplace Normal-Laplace Distribution: Univariate Asymmetric dnormm Mixture of Normal Distributions dnormp Normal Distribution: Precision Parameterization dnormv Normal Distribution: Variance Parameterization dnormwishart Normal-Wishart Distribution dpareto Pareto Distribution dpe Power Exponential Distribution: Univariate Symmetric dsdlaplace Skew Discrete Laplace Distribution: Univariate dsiw Scaled Inverse Wishart Distribution 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 dyangberger Yang-Berger Distribution dyangbergerc Yang-Berger Distribution dzellner Hyperprior-g Prior and Zellner's g-Prior

## -- E --

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

## -- G --

 GaussHermiteCubeRule Matrix Utility Functions GaussHermiteQuadRule Math Utility Functions 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 --

 Hangartner.Diagnostic Hangartner's Convergence Diagnostic Heidelberger.Diagnostic Heidelberger and Welch's MCMC Convergence Diagnostic Hermite Math Utility Functions 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.bayesian Logical Check of a Bayesian Model is.bimodal The Mode(s) of a Vector is.blocks Logical Check of Classes 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.hangartner Logical Check of Classes is.heidelberger Logical Check of Classes is.importance Logical Check of Classes is.iterquad Logical Check of Classes is.iterquad.ppc Logical Check of Classes is.juxtapose Logical Check of Classes is.laplace Logical Check of Classes is.laplace.ppc Logical Check of Classes is.miss 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.posteriorchecks Logical Check of Classes is.proper Logical Check of Propriety is.raftery Logical Check of Classes is.rejection Logical Check of Classes is.sensitivity Logical Check of Classes 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 is.vb Logical Check of Classes is.vb.ppc Logical Check of Classes IterativeQuadrature Iterative Quadrature

## -- J --

 Jacobian Matrix Utility Functions 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 logdet Matrix 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 MinnesotaPrior Minnesota Prior MISS Multiple Imputation Sequential Sampling 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 plaplacem Mixture of Laplace Distributions 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.iterquad Plot the output of 'IterativeQuadrature' plot.iterquad.ppc Plots of Posterior Predictive Checks plot.juxtapose Plot MCMC Juxtaposition plot.laplace Plot the output of 'LaplaceApproximation' plot.laplace.ppc Plots of Posterior Predictive Checks plot.miss Plot samples from the output of MISS plot.pmc Plot samples from the output of PMC plot.pmc.ppc Plots of Posterior Predictive Checks plot.vb Plot the output of 'VariationalBayes' plot.vb.ppc Plots of Posterior Predictive Checks plotMatrix Plot a Numerical Matrix plotSamples Plot Samples PMC Population Monte Carlo PMC.RAM PMC RAM Estimate pnormm Mixture of Normal Distributions 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.iterquad Posterior Predictive Checks predict.laplace Posterior Predictive Checks predict.pmc Posterior Predictive Checks predict.vb Posterior Predictive Checks print.demonoid Print an object of class 'demonoid' to the screen. print.heidelberger Print an object of class 'heidelberger' to the screen. print.iterquad Print an object of class 'iterquad' to the screen. print.laplace Print an object of class 'laplace' to the screen. print.miss Print an object of class 'miss' to the screen. print.pmc Print an object of class 'pmc' to the screen. print.raftery Print an object of class 'raftery' to the screen. print.vb Print an object of class 'vb' 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 --

 Raftery.Diagnostic Raftery and Lewis's diagnostic ralaplace Asymmetric Laplace Distribution: Univariate rallaplace Asymmetric Log-Laplace Distribution raml Asymmetric Multivariate Laplace Distribution rbern Bernoulli Distribution rcat Categorical Distribution rcrmrf Continuous Relaxation of a Markov Random Field Distribution rdirichlet Dirichlet Distribution read.matrix Matrix Utility Functions RejectionSampling Rejection Sampling rgpd Generalized Pareto Distribution rhalfcauchy Half-Cauchy Distribution rhalfnorm Half-Normal Distribution rhalft Half-t Distribution rhs Horseshoe Distribution rhuangwand Huang-Wand Distribution rhuangwandc Huang-Wand 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 rlaplacem Mixture of Laplace Distributions rlaplacep Laplace Distribution: Precision Parameterization rlasso LASSO Distribution rllaplace Log-Laplace Distribution: Univariate Symmetric rlnormp Log-Normal Distribution: Precision Parameterization rmatrixnorm Matrix Normal Distribution 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 rnorminvwishart Normal-Inverse-Wishart Distribution rnormlaplace Normal-Laplace Distribution: Univariate Asymmetric rnormm Mixture of Normal Distributions rnormp Normal Distribution: Precision Parameterization rnormv Normal Distribution: Variance Parameterization rnormwishart Normal-Wishart Distribution rpareto Pareto Distribution rpe Power Exponential Distribution: Univariate Symmetric rsdlaplace Skew Discrete Laplace Distribution: Univariate rsiw Scaled Inverse Wishart Distribution rslaplace Skew-Laplace Distribution: Univariate rst Student t Distribution: Univariate rStick Truncated Stick-Breaking Prior Distribution rstp Student t Distribution: Precision Parameterization rtrunc Truncated Distributions rwishart Wishart Distribution rwishartc Wishart Distribution: Cholesky Parameterization rzellner Hyperprior-g Prior and Zellner's g-Prior

## -- S --

 sd2prec Precision sd2var Precision SensitivityAnalysis Sensitivity Analysis server_Listening Server Listening SIR Sampling Importance Resampling SparseGrid Matrix Utility Functions Stick Truncated Stick-Breaking summary.demonoid.ppc Posterior Predictive Check Summary summary.iterquad.ppc Posterior Predictive Check Summary summary.laplace.ppc Posterior Predictive Check Summary summary.miss MISS Summary summary.pmc.ppc Posterior Predictive Check Summary summary.vb.ppc Posterior Predictive Check Summary

## -- T --

 Thin Thin tr Matrix Utility Functions TransitionMatrix Matrix Utility Functions

## -- U --

 upper.triangle Matrix Utility Functions

## -- V --

 Validate Holdout Validation var2prec Precision var2sd Precision VariationalBayes Variational Bayes vartrunc Truncated Distributions

## -- W --

 WAIC Widely Applicable Information Criterion

## -- misc --

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