LearnBayes: Functions for Learning Bayesian Inference

LearnBayes contains a collection of functions helpful in learning the basic tenets of Bayesian statistical inference. It contains functions for summarizing basic one and two parameter posterior distributions and predictive distributions. It contains MCMC algorithms for summarizing posterior distributions defined by the user. It also contains functions for regression models, hierarchical models, Bayesian tests, and illustrations of Gibbs sampling.

Author
Jim Albert
Date of publication
2014-05-29 17:33:08
Maintainer
Jim Albert <albert@bgsu.edu>
License
GPL (>= 2)
Version
2.15

View on CRAN

Man pages

achievement
School achievement data
baseball.1964
Team records in the 1964 National League baseball season
bayes.influence
Observation sensitivity analysis in beta-binomial model
bayes.model.selection
Bayesian regression model selection using G priors
bayes.probit
Simulates from a probit binary response regression model...
bayesresiduals
Computation of posterior residual outlying probabilities for...
bermuda.grass
Bermuda grass experiment data
betabinexch
Log posterior of logit mean and log precision for...
betabinexch0
Log posterior of mean and precision for Binomial/beta...
beta.select
Selection of Beta Prior Given Knowledge of Two Quantiles
bfexch
Logarithm of integral of Bayes factor for testing homogeneity...
bfindep
Bayes factor against independence assuming alternatives close...
binomial.beta.mix
Computes the posterior for binomial sampling and a mixture of...
birdextinct
Bird measurements from British islands
birthweight
Birthweight regression study
blinreg
Simulation from Bayesian linear regression model
blinregexpected
Simulates values of expected response for linear regression...
blinregpred
Simulates values of predicted response for linear regression...
bprobit.probs
Simulates fitted probabilities for a probit regression model
bradley.terry.post
Log posterior of a Bradley Terry random effects model
breastcancer
Survival experience of women with breast cancer under...
calculus.grades
Calculus grades dataset
cancermortality
Cancer mortality data
careertraj.setup
Setup for Career Trajectory Application
cauchyerrorpost
Log posterior of median and log scale parameters for Cauchy...
chemotherapy
Chemotherapy treatment effects on ovarian cancer
ctable
Bayes factor against independence using uniform priors
darwin
Darwin's data on plants
discint
Highest probability interval for a discrete distribution
discrete.bayes
Posterior distribution with discrete priors
discrete.bayes.2
Posterior distribution of two parameters with discrete priors
dmnorm
The probability density function for the multivariate normal...
dmt
Probability density function for multivariate t
donner
Donner survival study
election
Florida election data
election.2008
Poll data from 2008 U.S. Presidential Election
footballscores
Game outcomes and point spreads for American football
gibbs
Metropolis within Gibbs sampling algorithm of a posterior...
groupeddatapost
Log posterior of normal parameters when data is in grouped...
hearttransplants
Heart transplant mortality data
hiergibbs
Gibbs sampling for a hierarchical regression model
histprior
Density function of a histogram distribution
howardprior
Logarithm of Howard's dependent prior for two proportions
impsampling
Importance sampling using a t proposal density
indepmetrop
Independence Metropolis independence chain of a posterior...
iowagpa
Admissions data for an university
jeter2004
Hitting data for Derek Jeter
laplace
Summarization of a posterior density by the Laplace method
lbinorm
Logarithm of bivariate normal density
logctablepost
Log posterior of difference and sum of logits in a 2x2 table
logisticpost
Log posterior for a binary response model with a logistic...
logpoissgamma
Log posterior with Poisson sampling and gamma prior
logpoissnormal
Log posterior with Poisson sampling and normal prior
marathontimes
Marathon running times
mnormt.onesided
Bayesian test of one-sided hypothesis about a normal mean
mnormt.twosided
Bayesian test of a two-sided hypothesis about a normal mean
mycontour
Contour plot of a bivariate density function
normal.normal.mix
Computes the posterior for normal sampling and a mixture of...
normal.select
Selection of Normal Prior Given Knowledge of Two Quantiles
normchi2post
Log posterior density for mean and variance for normal...
normnormexch
Log posterior of mean and log standard deviation for...
normpostpred
Posterior predictive simulation from Bayesian normal sampling...
normpostsim
Simulation from Bayesian normal sampling model
ordergibbs
Gibbs sampling for a hierarchical regression model
pbetap
Predictive distribution for a binomial sample with a beta...
pbetat
Bayesian test of a proportion
pdisc
Posterior distribution for a proportion with discrete priors
pdiscp
Predictive distribution for a binomial sample with a discrete...
poissgamexch
Log posterior of Poisson/gamma exchangeable model
poisson.gamma.mix
Computes the posterior for Poisson sampling and a mixture of...
predplot
Plot of predictive distribution for binomial sampling with a...
prior.two.parameters
Construct discrete uniform prior for two parameters
puffin
Bird measurements from British islands
rdirichlet
Random draws from a Dirichlet distribution
reg.gprior.post
Computes the log posterior of a normal regression model with...
regroup
Collapses a matrix by summing over rows
rejectsampling
Rejecting sampling using a t proposal density
rigamma
Random number generation for inverse gamma distribution
rmnorm
Random number generation for multivariate normal
rmt
Random number generation for multivariate t
robustt
Gibbs sampling for a robust regression model
rtruncated
Simulates from a truncated probability distribution
rwmetrop
Random walk Metropolis algorithm of a posterior distribution
schmidt
Batting data for Mike Schmidt
simcontour
Simulated draws from a bivariate density function on a grid
sir
Sampling importance resampling
sluggerdata
Hitting statistics for ten great baseball players
soccergoals
Goals scored by professional soccer team
stanfordheart
Data from Stanford Heart Transplanation Program
strikeout
Baseball strikeout data
studentdata
Student dataset
transplantpost
Log posterior of a Pareto model for survival data
triplot
Plot of prior, likelihood and posterior for a proportion
weibullregpost
Log posterior of a Weibull proportional odds model for...

Files in this package

LearnBayes
LearnBayes/inst
LearnBayes/inst/doc
LearnBayes/inst/doc/BinomialInference.R
LearnBayes/inst/doc/DiscreteBayes.pdf
LearnBayes/inst/doc/MultilevelModeling.R
LearnBayes/inst/doc/BinomialInference.Rnw
LearnBayes/inst/doc/DiscreteBayes.Rnw
LearnBayes/inst/doc/MultilevelModeling.Rnw
LearnBayes/inst/doc/MCMCintro.R
LearnBayes/inst/doc/BayesFactors.Rnw
LearnBayes/inst/doc/BayesFactors.pdf
LearnBayes/inst/doc/MultilevelModeling.pdf
LearnBayes/inst/doc/BayesFactors.R
LearnBayes/inst/doc/MCMCintro.Rnw
LearnBayes/inst/doc/BinomialInference.pdf
LearnBayes/inst/doc/MCMCintro.pdf
LearnBayes/inst/doc/DiscreteBayes.R
LearnBayes/NAMESPACE
LearnBayes/demo
LearnBayes/demo/Chapter.6.10.R
LearnBayes/demo/Chapter.8.8.R
LearnBayes/demo/Chapter.4.4.R
LearnBayes/demo/Chapter.6.2.R
LearnBayes/demo/Chapter.6.7.R
LearnBayes/demo/Chapter.5.6.R
LearnBayes/demo/Chapter.3.6.R
LearnBayes/demo/Chapter.3.3.R
LearnBayes/demo/Chapter.9.4.R
LearnBayes/demo/Chapter.6.8.R
LearnBayes/demo/Chapter.4.3.R
LearnBayes/demo/Chapter.8.3.R
LearnBayes/demo/Chapter.4.5.R
LearnBayes/demo/Chapter.8.4.R
LearnBayes/demo/Chapter.1.3.R
LearnBayes/demo/Chapter.8.7.R
LearnBayes/demo/Chapter.3.4.R
LearnBayes/demo/Chapter.2.3.R
LearnBayes/demo/Chapter.9.3.R
LearnBayes/demo/Chapter.7.3.R
LearnBayes/demo/Chapter.2.6.R
LearnBayes/demo/Chapter.3.2.R
LearnBayes/demo/Chapter.5.4.R
LearnBayes/demo/Chapter.7.7.R
LearnBayes/demo/Chapter.7.10.R
LearnBayes/demo/Chapter.10.4.R
LearnBayes/demo/Chapter.3.5.R
LearnBayes/demo/Chapter.7.2.R
LearnBayes/demo/Chapter.7.5.R
LearnBayes/demo/00Index
LearnBayes/demo/Chapter.10.2.R
LearnBayes/demo/Chapter.6.9.R
LearnBayes/demo/Chapter.5.7.R
LearnBayes/demo/Chapter.5.10.R
LearnBayes/demo/Chapter.1.2.R
LearnBayes/demo/Chapter.7.8.R
LearnBayes/demo/Chapter.7.4.R
LearnBayes/demo/Chapter.8.6.R
LearnBayes/demo/Chapter.9.2.R
LearnBayes/demo/Chapter.4.2.R
LearnBayes/demo/Chapter.7.9.R
LearnBayes/demo/Chapter.10.3.R
LearnBayes/demo/Chapter.2.5.R
LearnBayes/demo/Chapter.2.4.R
LearnBayes/demo/Chapter.5.9.R
LearnBayes/demo/Chapter.5.8.R
LearnBayes/data
LearnBayes/data/marathontimes.txt.gz
LearnBayes/data/achievement.txt.gz
LearnBayes/data/bermuda.grass.txt.gz
LearnBayes/data/iowagpa.txt.gz
LearnBayes/data/soccergoals.txt.gz
LearnBayes/data/hearttransplants.txt.gz
LearnBayes/data/baseball.1964.txt.gz
LearnBayes/data/election.txt.gz
LearnBayes/data/stanfordheart.txt.gz
LearnBayes/data/darwin.txt.gz
LearnBayes/data/election.2008.txt.gz
LearnBayes/data/breastcancer.txt.gz
LearnBayes/data/sluggerdata.txt.gz
LearnBayes/data/footballscores.txt.gz
LearnBayes/data/schmidt.txt.gz
LearnBayes/data/strikeout.txt.gz
LearnBayes/data/jeter2004.txt.gz
LearnBayes/data/calculus.grades.txt.gz
LearnBayes/data/studentdata.txt.gz
LearnBayes/data/cancermortality.txt.gz
LearnBayes/data/birthweight.txt.gz
LearnBayes/data/birdextinct.txt.gz
LearnBayes/data/chemotherapy.txt.gz
LearnBayes/data/puffin.txt.gz
LearnBayes/data/donner.txt.gz
LearnBayes/R
LearnBayes/R/howardprior.R
LearnBayes/R/bayes.probit.R
LearnBayes/R/blinreg.R
LearnBayes/R/histprior.R
LearnBayes/R/indepmetrop.R
LearnBayes/R/mycontour.R
LearnBayes/R/dmt.R
LearnBayes/R/bradley.terry.post.R
LearnBayes/R/pdiscp.R
LearnBayes/R/cauchyerrorpost.R
LearnBayes/R/betabinexch0.R
LearnBayes/R/normnormexch.R
LearnBayes/R/bayesresiduals.R
LearnBayes/R/discrete.bayes.R
LearnBayes/R/simcontour.R
LearnBayes/R/ctable.R
LearnBayes/R/bprobit.probs.R
LearnBayes/R/ordergibbs.R
LearnBayes/R/transplantpost.R
LearnBayes/R/rtruncated.R
LearnBayes/R/careertraj.setup.R
LearnBayes/R/robustt.R
LearnBayes/R/sir.R
LearnBayes/R/weibullregpost.R
LearnBayes/R/blinregpred.R
LearnBayes/R/rmnorm.R
LearnBayes/R/bayes.model.selection.R
LearnBayes/R/normpostsim.R
LearnBayes/R/hiergibbs.R
LearnBayes/R/normal.select.R
LearnBayes/R/mnormt.onesided.R
LearnBayes/R/plot.bayes.R
LearnBayes/R/logisticpost.R
LearnBayes/R/gibbs.R
LearnBayes/R/binomial.beta.mix.R
LearnBayes/R/rdirichlet.R
LearnBayes/R/discint.R
LearnBayes/R/poissgamexch.R
LearnBayes/R/normal.normal.mix.R
LearnBayes/R/laplace.R
LearnBayes/R/prior.two.parameters.R
LearnBayes/R/rwmetrop.R
LearnBayes/R/reg.gprior.post.R
LearnBayes/R/pbetap.R
LearnBayes/R/logctablepost.R
LearnBayes/R/discrete.bayes.2.R
LearnBayes/R/bfexch.R
LearnBayes/R/print.bayes.R
LearnBayes/R/lbinorm.R
LearnBayes/R/rmt.R
LearnBayes/R/bayes.influence.R
LearnBayes/R/groupeddatapost.R
LearnBayes/R/logpoissgamma.R
LearnBayes/R/poisson.gamma.mix.R
LearnBayes/R/dmnorm.R
LearnBayes/R/mnormt.twosided.R
LearnBayes/R/bfindep.R
LearnBayes/R/normpostpred.R
LearnBayes/R/pdisc.R
LearnBayes/R/rejectsampling.R
LearnBayes/R/plot.bayes2.R
LearnBayes/R/summary.bayes.R
LearnBayes/R/rigamma.R
LearnBayes/R/pbetat.R
LearnBayes/R/blinregexpected.R
LearnBayes/R/triplot.R
LearnBayes/R/normchi2post.R
LearnBayes/R/logpoissnormal.R
LearnBayes/R/beta.select.R
LearnBayes/R/betabinexch.R
LearnBayes/R/predplot.R
LearnBayes/R/regroup.R
LearnBayes/R/impsampling.R
LearnBayes/vignettes
LearnBayes/vignettes/BinomialInference.Rnw
LearnBayes/vignettes/DiscreteBayes.Rnw
LearnBayes/vignettes/MultilevelModeling.Rnw
LearnBayes/vignettes/BayesFactors.Rnw
LearnBayes/vignettes/MCMCintro.Rnw
LearnBayes/MD5
LearnBayes/build
LearnBayes/build/vignette.rds
LearnBayes/DESCRIPTION
LearnBayes/man
LearnBayes/man/prior.two.parameters.Rd
LearnBayes/man/pbetat.Rd
LearnBayes/man/logpoissnormal.Rd
LearnBayes/man/blinreg.Rd
LearnBayes/man/normnormexch.Rd
LearnBayes/man/cauchyerrorpost.Rd
LearnBayes/man/impsampling.Rd
LearnBayes/man/predplot.Rd
LearnBayes/man/pbetap.Rd
LearnBayes/man/normal.normal.mix.Rd
LearnBayes/man/schmidt.Rd
LearnBayes/man/achievement.Rd
LearnBayes/man/discint.Rd
LearnBayes/man/studentdata.Rd
LearnBayes/man/blinregexpected.Rd
LearnBayes/man/bayesresiduals.Rd
LearnBayes/man/footballscores.Rd
LearnBayes/man/baseball.1964.Rd
LearnBayes/man/rigamma.Rd
LearnBayes/man/discrete.bayes.Rd
LearnBayes/man/logctablepost.Rd
LearnBayes/man/discrete.bayes.2.Rd
LearnBayes/man/dmt.Rd
LearnBayes/man/rdirichlet.Rd
LearnBayes/man/reg.gprior.post.Rd
LearnBayes/man/bprobit.probs.Rd
LearnBayes/man/rmnorm.Rd
LearnBayes/man/betabinexch.Rd
LearnBayes/man/donner.Rd
LearnBayes/man/logisticpost.Rd
LearnBayes/man/poissgamexch.Rd
LearnBayes/man/hearttransplants.Rd
LearnBayes/man/soccergoals.Rd
LearnBayes/man/beta.select.Rd
LearnBayes/man/bermuda.grass.Rd
LearnBayes/man/cancermortality.Rd
LearnBayes/man/bayes.probit.Rd
LearnBayes/man/gibbs.Rd
LearnBayes/man/strikeout.Rd
LearnBayes/man/birthweight.Rd
LearnBayes/man/dmnorm.Rd
LearnBayes/man/sir.Rd
LearnBayes/man/blinregpred.Rd
LearnBayes/man/normpostsim.Rd
LearnBayes/man/howardprior.Rd
LearnBayes/man/ordergibbs.Rd
LearnBayes/man/stanfordheart.Rd
LearnBayes/man/lbinorm.Rd
LearnBayes/man/betabinexch0.Rd
LearnBayes/man/laplace.Rd
LearnBayes/man/logpoissgamma.Rd
LearnBayes/man/normal.select.Rd
LearnBayes/man/election.2008.Rd
LearnBayes/man/mnormt.onesided.Rd
LearnBayes/man/rmt.Rd
LearnBayes/man/robustt.Rd
LearnBayes/man/normchi2post.Rd
LearnBayes/man/rejectsampling.Rd
LearnBayes/man/poisson.gamma.mix.Rd
LearnBayes/man/binomial.beta.mix.Rd
LearnBayes/man/careertraj.setup.Rd
LearnBayes/man/regroup.Rd
LearnBayes/man/birdextinct.Rd
LearnBayes/man/bayes.model.selection.Rd
LearnBayes/man/marathontimes.Rd
LearnBayes/man/jeter2004.Rd
LearnBayes/man/weibullregpost.Rd
LearnBayes/man/pdisc.Rd
LearnBayes/man/triplot.Rd
LearnBayes/man/bfindep.Rd
LearnBayes/man/bayes.influence.Rd
LearnBayes/man/breastcancer.Rd
LearnBayes/man/groupeddatapost.Rd
LearnBayes/man/mnormt.twosided.Rd
LearnBayes/man/hiergibbs.Rd
LearnBayes/man/iowagpa.Rd
LearnBayes/man/chemotherapy.Rd
LearnBayes/man/mycontour.Rd
LearnBayes/man/rwmetrop.Rd
LearnBayes/man/puffin.Rd
LearnBayes/man/calculus.grades.Rd
LearnBayes/man/histprior.Rd
LearnBayes/man/bfexch.Rd
LearnBayes/man/election.Rd
LearnBayes/man/simcontour.Rd
LearnBayes/man/indepmetrop.Rd
LearnBayes/man/ctable.Rd
LearnBayes/man/pdiscp.Rd
LearnBayes/man/sluggerdata.Rd
LearnBayes/man/rtruncated.Rd
LearnBayes/man/normpostpred.Rd
LearnBayes/man/bradley.terry.post.Rd
LearnBayes/man/transplantpost.Rd
LearnBayes/man/darwin.Rd