regmed-package {regmed}

Regularized Mediation Analysis

Description

Mediation analysis for multiple mediators by penalized structural equation models with different types of penalties depending on whether there are multiple mediators and only one exposure and one outcome variable (using sparse group lasso) or multiple exposures, multiple mediators, and multiple outcome variables (using lasso, L1, penalties).

Details

The DESCRIPTION file:

Package:	regmed
Type:	Package
Title:	Regularized Mediation Analysis
Version:	2.1.0
Date:	2023-1-20
Authors@R:	c( person("Jason", "Sinnwell", email = "[e-mail]", comment=c(ORCID="0000-0003-1964-5522"), role = c("aut","cre"),), person("Daniel", "Schaid", email = "[e-mail]", comment=c(ORCID="0000-0003-1457-6433"), role = c("aut"),))
Description:	Mediation analysis for multiple mediators by penalized structural equation models with different types of penalties depending on whether there are multiple mediators and only one exposure and one outcome variable (using sparse group lasso) or multiple exposures, multiple mediators, and multiple outcome variables (using lasso, L1, penalties).
License:	GPL (>= 2)
Suggests:	testthat, rmarkdown
Depends:	R (>= 4.1.0), methods, graphics, glasso, igraph
Imports:	knitr, Rcpp, RcppArmadillo, lavaan, gtools
LinkingTo:	Rcpp, RcppArmadillo
NeedsCompilation:	yes
VignetteBuilder:	knitr
URL:	https://cran.r-project.org/package=regmed
Author:	Jason Sinnwell [aut, cre] (<https://orcid.org/0000-0003-1964-5522>), Daniel Schaid [aut] (<https://orcid.org/0000-0003-1457-6433>)
Maintainer:	Jason Sinnwell <[e-mail]>

Index of help topics:

medsim                  Simulated dataset for regmed package
mvregmed.dat.check      Helper function to check x, y, mediator for
                        input to mvregmed functions
mvregmed.edges          For an object of class mvregmed, create edges
                        for a graph object that can be used for plots,
                        or for creating models input to lavaan function
                        sem
mvregmed.fit            Multivariate regularized mediation model
mvregmed.graph.attributes
                        Setup attributes of graph object for plotting
mvregmed.grid           Fit a grid of mvregmed models over a vector of
                        lambda penalty parameters
mvregmed.grid.bestfit   Choose best fit model from a grid search based
                        on minimum Bayesian Information Criterion
mvregmed.grid.data      Helper function to summarize fits of models
                        across a grid of lambda values
mvregmed.grid.update    Helper function to update parameters in a grid
                        search
mvregmed.init           Helper function to setup data and parameters
                        for input to mvregmed.fit and mvregmed.grid
mvregmed.lavaan.dat     Set up data to input to lavaan sem
mvregmed.lavaan.model   Setup a model for input to lavaan
plot.mvregmed.grid      Plot penalty parameter lambda versus BIC for
                        model fits
plot.regmed.grid        Plots for regmed.grid object.
regmed-package          Regularized Mediation Analysis
regmed.edges            For an object of class regmed, create edges for
                        a graph object that can be used for plots, or
                        for creating models input to lavaan function
                        sem
regmed.fit              Regularized Mediation model for a specified
                        lambda penalty value.
regmed.grid             Regularized mediation models over a vector grid
                        of lambda penalty values.
regmed.grid.bestfit     Find best fitting regmed model from regmed.grid
                        object.
regmed.lavaan.dat       Set up data to input to lavaan sem
regmed.lavaan.model     Create a lavaan model
regmed.prefilter        Prefilter to reduce the number of mediators for
                        subsequent analyses
summary.mvregmed        Summary of mvregmed object

Further information is available in the following vignettes:

regmed	Regularized_Mediation_Examples (source)

Author(s)

NA

Maintainer: NA

References

Schaid, DJ, Sinnwell JP. (2020) Penalized Models for Analysis of Multiple Mediators. Genet Epidemiol 44:408-424.

Schaid DS, Dikilitas O, Sinnwell JP, Kullo I (2022). Penalized mediation models for multivariate data. Genet Epidemiol 46:32-50.