aovreml: ANOVA with random effects using the (REstricted) Maximum...

In RcmdrPlugin.TeachStat: R Commander Plugin for Teaching Statistical Methods

ANOVA with random effects using the (REstricted) Maximum Likelihood method.

Description

Print the ANOVA table with random effects and compute the point estimations of the variance components using the maximum likelihood method or the REstricted Maximum Likelihood (REML) method. It also provides some confidence intervals.

Usage

aovreml(formula, data = NULL, Lconfint = FALSE, REML = TRUE, ...)

Arguments

formula	A formula specifying the model. Random-effects terms are distinguished by vertical bars (|) separating expressions for design matrices from grouping factors. Two vertical bars (||) can be used to specify multiple uncorrelated random effects for the same grouping variable. (Because of the way it is implemented, the ||-syntax works only for design matrices containing numeric (continuous) predictors.)
data	an optional data frame containing the variables named in formula. By default the variables are taken from the environment of formula.
Lconfint	logical scalar - Should the confidence intervals be printed?
REML	logical scalar - Should the estimates be chosen to optimize the REML criterion (as opposed to the log-likelihood)?
...	Arguments to be passed to other functions.

Value

A list

See Also

aov, lmer, aovremm.

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (formula, data = NULL, Lconfint = FALSE, REML = TRUE, 
    ...) 
{
    vars <- all.vars(formula)
    formulaaov <- as.formula(paste(vars[1], "~", vars[2]))
    ANOV <- aov(formulaaov, data, ...)
    .ANOV <- summary(ANOV)
    cat("-------------------------------")
    cat("\n", gettext("ANOVA table", domain = "R-RcmdrPlugin.TeachStat"), 
        ":\n", sep = "")
    print(.ANOV)
    cat("\n-------------------------------\n")
    .sol <- lme4::lmer(formula, data = data, REML = REML, ...)
    .varcor <- lme4::VarCorr(.sol)
    .sighat2 <- unname(attr(.varcor, "sc"))^2
    .sighatalph2 <- unname(attr(.varcor[[vars[2]]], "stddev"))^2
    .prop <- .sighatalph2/(.sighatalph2 + .sighat2)
    estim <- c(.sighat2, .sighatalph2, .prop)
    names(estim) <- c("var (Error)", "var (Effect)", "% var (Effect)")
    cat("\n", gettext("Components of Variance", domain = "R-RcmdrPlugin.TeachStat"), 
        " (", lme4::methTitle(.sol@devcomp$dims), "):\n", sep = "")
    print(estim)
    if (Lconfint) {
        cat("\n", gettext("Confidence intervals", domain = "R-RcmdrPlugin.TeachStat"), 
            ":\n", sep = "")
        print(confint(.sol, oldNames = FALSE))
    }
    return(invisible(list(model = .sol, estimation = estim)))
  }

RcmdrPlugin.TeachStat documentation built on Nov. 14, 2023, 5:08 p.m.