Learn R Programming

⚠️There's a newer version (3.8) of this package.Take me there.

bayesSurv (version 2.6)

Bayesian Survival Regression with Flexible Error and Random Effects Distributions

Description

Contains Bayesian implementations of Mixed-Effects Accelerated Failure Time (MEAFT) models for censored data. Those can be not only right-censored but also interval-censored, doubly-interval-censored or misclassified interval-censored.

Copy Link

Version

Install

install.packages('bayesSurv')

Monthly Downloads

839

Version

2.6

License

GPL (>= 2)

Maintainer

Arnošt Komárek

Last Published

July 27th, 2015

Functions in bayesSurv (2.6)

Cluster-specific accelerated failure time model for multivariate, possibly doubly-interval-censored data. The error distribution is expressed as a~penalized univariate normal mixture with high number of components (G-spline). The distribution of the vector of random effects is multivariate normal.

Summary for the density estimate based on the model with Bayesian G-splines.

bayessurvreg2.help

Helping functions for Bayesian regression with an error distribution smoothed using G-splines

Compute predictive quantities based on a Bayesian survival regression model fitted using bayesBisurvreg or bayessurvreg2 or bayessurvreg3 functions.

Smoothing of a uni- or bivariate histogram using Bayesian G-splines

Write headers to or clean files with sampled G-spline

Population-averaged accelerated failure time model for bivariate, possibly doubly-interval-censored data. The error distribution is expressed as a~penalized bivariate normal mixture with high number of components (bivariate G-spline).

bayessurvreg1.help

Helping function for Bayesian survival regression models, version 1.

plot.marginal.bayesGspline

Plot an object of class marginal.bayesGspline

marginal.bayesGspline

Summary for the marginal density estimates based on the bivariate model with Bayesian G-splines.

bayesHistogram.help

Helping function for Bayesian smoothing of (bi)-variate densities based on possibly censored data

plot.bayesDensity

Plot an object of class bayesDensity

bayessurvreg3.help

Helping functions for Bayesian regression with an error distribution smoothed using G-splines

Brief summary for the chain(s) obtained using the MCMC.

Compute a sample covariance matrix.

plot.bayesGspline

Plot an object of class bayesGspline

credible.region

Compute a simultaneous credible region (rectangle) from a sample for a vector valued parameter.

A Bayesian survival regression with an error distribution expressed as a~normal mixture with unknown number of components

Compute predictive quantities based on a Bayesian survival regression model fitted using bayessurvreg1 function.

Cluster-specific accelerated failure time model for multivariate, possibly doubly-interval-censored data with flexibly specified random effects and/or error distribution.

Read Data Values

Compute a simultaneous p-value from a sample for a vector valued parameter.

Check and possibly fill in initial values for the G-spline, augmented observations and allocations for Bayesian models with G-splines

Signal Tandmobiel data, version 2

Sample from the Wishart distribution

bayessurvreg1.files2init

Read the initial values for the Bayesian survival regression model to the list.

Read the sampled values from the Bayesian survival regression model to a coda mcmc object.

Sample from the multivariate normal distribution

bayesBisurvreg.help

Helping function for Bayesian regression with smoothed bivariate densities as the error term, based on possibly censored data

Trace plot of MCMC output.

print.bayesDensity

Print a summary for the density estimate based on the Bayesian model.

bayessurvreg.help

Helping function for Bayesian survival regression models.

sampled.kendall.tau

Estimate of the Kendall's tau from the bivariate model

Transform single component indeces to double component indeces

Summary for the density estimate based on the mixture Bayesian AFT model.

Chronic Granulomatous Disease data

Probability density function estimate from MCMC output

Signal Tandmobiel data, version Roos