Learn R Programming

varbvs (version 2.6-10)

Large-Scale Bayesian Variable Selection Using Variational Methods

Description

Fast algorithms for fitting Bayesian variable selection models and computing Bayes factors, in which the outcome (or response variable) is modeled using a linear regression or a logistic regression. The algorithms are based on the variational approximations described in "Scalable variational inference for Bayesian variable selection in regression, and its accuracy in genetic association studies" (P. Carbonetto & M. Stephens, 2012, ). This software has been applied to large data sets with over a million variables and thousands of samples.

Copy Link

Version

Install

install.packages('varbvs')

Monthly Downloads

297

Version

2.6-10

License

GPL (>= 3)

Issues

Pull Requests

Stars

Forks

Last Published

May 31st, 2023

Functions in varbvs (2.6-10)

normalizelogweights

Compute normalized probabilities.
rand,randn

Return matrices of pseudorandom values.
summary.varbvs,print.summary.varbvs

Summarize a fitted variable selection model.
varbvsmix

Fit linear regression with mixture-of-normals priors using variational approximation methods.
varbvs-internal

Internal varbvs functions
varbvsproxybf

Compute Bayes factors measuring improvement-in-fit along 1 dimension.
predict.varbvs

Make predictions from a model fitted by varbvs.
varbvsbf

Compute numerical estimate of Bayes factor.
varbvs

Fit variable selection model using variational approximation methods.
varbvs.properties

Accessing Properties of Fitted varbvs Models
varbvs-package

Large-scale Bayesian variable selection using variational methods
varbvsindep

Compute posterior statistics, ignoring correlations.
leukemia

Expression levels recorded in leukemia patients.
cred

Estimate credible interval.
subset.varbvs

Select hyperparameter settings from varbvs analysis.
plot.varbvs

Summarize variable selection results in a single plot.
predict.varbvsmix

Make predictions from a model fitted by varbvsmix.
cytokine

Cytokine signaling genes SNP annotation.