Learn R Programming

⚠️There's a newer version (3.0.7) of this package.Take me there.

tidybayes (version 2.0.3)

Tidy Data and 'Geoms' for Bayesian Models

Description

Compose data for and extract, manipulate, and visualize posterior draws from Bayesian models ('JAGS', 'Stan', 'rstanarm', 'brms', 'MCMCglmm', 'coda', ...) in a tidy data format. Functions are provided to help extract tidy data frames of draws from Bayesian models and that generate point summaries and intervals in a tidy format. In addition, 'ggplot2' 'geoms' and 'stats' are provided for common visualization primitives like points with multiple uncertainty intervals, eye plots (intervals plus densities), and fit curves with multiple, arbitrary uncertainty bands.

Copy Link

Version

Install

install.packages('tidybayes')

Monthly Downloads

6,160

Version

2.0.3

License

GPL (>= 3)

Issues

Pull Requests

Stars

Forks

Repository

https://github.com/mjskay/tidybayes

Homepage

http://mjskay.github.io/tidybayes

Maintainer

Matthew Kay

Last Published

April 4th, 2020

Functions in tidybayes (2.0.3)

Data lists for input into Bayesian models

Density bins and histogram bins as data frames

Compose data for input into a Bayesian model

Compare the value of draws of some variable from a Bayesian model for different levels of a factor

Thinned subset of posterior sample from a Bayesian analysis of perception of correlation.

Add draws to a data frame in tidy format

Gather pairwise combinations of values from key/value columns in a long-format data frame

add_fitted_draws

Add draws from the posterior fit, predictions, or residuals of a model to a data frame

Eye plots of densities with point and interval summaries (Deprecated spellings)

Multiple probability interval plots (ggplot geom)

Combine the chain and iteration columns of tidy data frames of draws

lkjcorr_marginal

Marginal distribution of a single correlation from an LKJ distribution

geom_lineribbon

Line + multiple probability ribbon plots (ggplot geom)

geom_pointinterval

Point + multiple probability interval plots (ggplot geom)

geom_slabinterval

Slab + point + interval meta-geom

geom_dotsinterval

Automatic dotplots, dots + intervals, and quantile dotplots (ggplot geom)

gather_emmeans_draws

Extract a tidy data frame of draws of posterior distributions of "estimated marginal means" (emmeans/lsmeans) from a Bayesian model fit.

marginalize_lkjcorr

Turn spec for LKJ distribution into spec for marginal LKJ distribution

Point and interval summaries for tidy data frames of draws from distributions

Parse distribution specifications into columns of a data frame

Prefix function generator for composing dimension index columns

gather_variables

Gather variables from a tidy data frame of draws from variables into a single column

Custom ggplot scales for geom_slabinterval (and derivatives)

stat_dist_slabinterval

Distribution + interval plots (eye plots, half-eye plots, CCDF barplots, etc) for analytical distributions (ggplot stat)

theme_tidybayes

Simple, light ggplot2 theme for tidybayes

Get the names of the variables in a fitted Bayesian model

Extract draws of variables in a Bayesian model fit into a tidy data format

Multiple probability interval plots (ggplot stat)

stat_sample_slabinterval

Distribution + interval plots (eye plots, half-eye plots, CCDF barplots, etc) for samples (ggplot stat)

Deprecated: Prediction curves for arbitrary functions of posteriors

Generate lookup vectors for composing nested indices

tidybayes-models

Models supported by tidybayes

stat_lineribbon

Line + multiple probability ribbon plots (ggplot stat)

Sample draws from a tidy-format data frame of draws

stat_pointinterval

Point summary + multiple probability interval plots (ggplot stat)

tidybayes-deprecated

Deprecated functions, arguments, and column names in tidybayes

tidybayes-package

Tidy Data and 'Geoms' for Bayesian Models

Turn tidy data frames of variables from a Bayesian model back into untidy data

Decorate a model fit or sample with data types recovered from the input data

Get a sample of posterior draws from a model as a tibble

tidy-format-translators

Translate between different tidy data frame formats for draws from distributions

stat_slabinterval

Meta-stat for computing slab functions and interval functions (ggplot stat)

tidybayes-ggproto

Base ggproto classes for tidybayes