All functions

GR_crit()

Gelman-Rubin criterion for convergence

JointAI

JointAI: Joint Analysis and Imputation of Incomplete Data

JointAIObject

Fitted object of class 'JointAI'

MC_error() plot(<MCElist>)

Calculate and plot the Monte Carlo error

NHANES

National Health and Nutrition Examination Survey (NHANES) Data

PBC

PBC data

add_samples()

Continue sampling from an object of class JointAI

clean_survname()

Convert a survival outcome to a model name

default_hyperpars()

Get the default values for hyper-parameters

densplot()

Plot the posterior density from object of class JointAI

extract_state()

Return the current state of a 'JointAI' model

get_MIdat()

Extract multiple imputed datasets from an object of class JointAI

get_missinfo()

Obtain a summary of the missing values involved in an object of class JointAI

list_models()

List model details

longDF

Longitudinal example dataset

md_pattern()

Missing data pattern

lm_imp() glm_imp() clm_imp() lognorm_imp() betareg_imp() mlogit_imp() lme_imp() lmer_imp() glme_imp() glmer_imp() betamm_imp() lognormmm_imp() clmm_imp() mlogitmm_imp() survreg_imp() coxph_imp() JM_imp()

Joint Analysis and Imputation of incomplete data

parameters()

Parameter names of an JointAI object

plot(<JointAI>)

Plot an object object inheriting from class 'JointAI'

plot_all()

Visualize the distribution of all variables in the dataset

plot_imp_distr()

Plot the distribution of observed and imputed values

predDF()

Create a new data frame for prediction

predict(<JointAI>)

Predict values from an object of class JointAI

rd_vcov()

Extract the random effects variance covariance matrix Returns the posterior mean of the variance-covariance matrix/matrices of the random effects in a fitted JointAI object.

residuals(<JointAI>)

Extract residuals from an object of class JointAI

set_refcat()

Specify reference categories for all categorical covariates in the model

sharedParams

Parameters used by several functions in JointAI

simLong simWide

Simulated Longitudinal Data in Long and Wide Format

print(<Dmat>) summary(<JointAI>) print(<summary.JointAI>) coef(<JointAI>) confint(<JointAI>) print(<JointAI>)

Summarize the results from an object of class JointAI

traceplot()

Create traceplots for a MCMC sample

wideDF

Cross-sectional example dataset