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R/item.invar.R
In misty: Miscellaneous Functions 'T. Yanagida'
Defines functions
item.invar
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item.invar
#' Between-Group and Longitudinal Measurement Invariance Evaluation
#'
#' This function is a wrapper function for evaluating configural, metric, scalar,
#' and strict between-group or longitudinal (partial) measurement invariance using
#' confirmatory factor analysis with continuous indicators by calling the \code{cfa}
#' function in the R package \pkg{lavaan}. By default, the function evaluates
#' configural, metric, and scalar measurement invariance by providing a table
#' with model fit information (i.e., chi-square test, fit indices based on a proper
#' null model, and information criteria) and model comparison (i.e., chi-square
#' difference test, change in fit indices, and change in information criteria).
#' Additionally, variance-covariance coverage of the data, descriptive statistics,
#' parameter estimates, modification indices, and residual correlation matrix can
#' be requested by specifying the argument \code{print}.
#'
#' @param x a matrix or data frame. If \code{model = NULL}, confirmatory
#' factor analysis based on a measurement model with one factor
#' labeled \code{f} comprising all variables in the matrix or
#' data frame specified in \code{x} for evaluating between-group
#' measurement invariance for the grouping variable specified
#' in the argument \code{group} is conducted. Longitudinal
#' measurement invariance evaluation can only be conducted by
#' specifying the model using the argument \code{model}. Note
#' that the cluster variable is excluded from \code{x} when
#' specifying \code{cluster}. If \code{model} is specified,
#' the matrix or data frame needs to contain all variables
#' used in the argument \code{model} and the cluster variable
#' when specifying the name of the cluster variable in the
#' argument \code{cluster}.
#' @param model a character vector specifying a measurement model with one
#' factor, or a list of character vectors for specifying a
#' measurement model with more than one factor for evaluating
#' between-group measurement invariance when \code{long = FALSE}
#' or a list of character vectors for specifying a measurement
#' model with one factor for each time of measurement for
#' evaluating longitudinal measurement invariance when
#' specifying \code{long = TRUE}. For example,
#' \code{model = c("x1", "x2", "x3", "x4")} for specifying a
#' measurement model with one factor labeled \code{f} comprising
#' four indicators, or \code{model = list(factor1 = c("x1", "x2", "x3", "x4"),
#' factor2 = c("x5", "x6", "x7", "x8"))} for specifying a
#' measurement model with two latent factors labeled \code{factor1}
#' and \code{factor2} each comprising four indicators for
#' evaluating between-group measurement invariance, or
#' \code{model = list(time1 = c("ax1", "ax2", "ax3", "ax4"),
#' time2 = c("bx1", "bx2", "bx3", "bx4"),
#' time3 = c("cx1", "cx2", "cx3", "cx4"))} for specifying a
#' longitudinal measurement model with three time points comprising
#' four indicators at each time point. This function cannot
#' evaluate longitudinal measurement invariance for a measurement
#' model with more than one factor. Note that the name of each
#' list element is used to label factors, i.e., all list elements
#' need to be named, otherwise factors are labeled with \code{"f1", "f2", "f3"}
#' when \code{long = FALSE} and with \code{"t1", "t2", "t3"}
#' when \code{long = TRUE} and so on.
#' @param rescov a character vector or a list of character vectors for specifying
#' residual covariancesindiator, e.g., \code{rescov = c("x1", "x2")}
#' for specifying a residual covariance between items \code{x1}
#' and \code{x2}, or \code{rescov = list(c("x1", "x2"), c("x3", "x4"))}
#' for specifying residual covariances between items \code{x1}
#' and \code{x2}, and items \code{x3} and \code{x4}.
#' @param rescov.long logical: if \code{TRUE} (default), residual covariances between
#' parallel indicators are estimated across time when evaluating
#' longitudinal measurement invariance (\code{long = TRUE}),
#' i.e., residual variances of the same indicators that are
#' measured at different time points are correlated across all
#' possible time points. Note that residual covariances should
#' be estimated even if the parameter estimates are statistically
#' not significant since indicator-specific systematic variance
#' is likely to correlate with itself over time (Little, 2013,
#' p. 164).
#' @param group either a character string indicating the variable name of
#' the grouping variable in the matrix or data frame specified
#' in \code{x} or a vector representing the groups
#' for conducting multiple-group analysis to evaluate between-group
#' measurement invariance.
#' @param long logical: if \code{TRUE}, longitudinal measurement invariance
#' evaluation is conducted. The longitudinal measurement model
#' is specified by using the argument \code{model}. Note that
#' this function can only evaluate either between-group or
#' longitudinal measurement invariance, but not both at the
#' same time.
#' @param cluster either a character string indicating the variable name of
#' the cluster variable in the matrix or data frame specified
#' in \code{x} or a vector representing the nested grouping
#' structure (i.e., group or cluster variable) for computing
#' a robust test statistic and cluster-robust standard errors.
#' @param invar a character string indicating the level of measurement
#' invariance to be evaluated, i.e., \code{config} to evaluate
#' configural measurement invariance (i.e., same factor structure
#' across groups or time), \code{metric} to evaluate configural
#' and metric measurement invariance (i.e., equal factor loadings
#' across groups or time), \code{scalar} (default) to evaluate
#' configural, metric and scalar measurement invariance (i.e.,
#' equal intercepts or thresholds across groups or time), and
#' \code{strict} to evaluate configural, metric, scalar, and
#' strict measurement invariance (i.e., equal residual variances
#' across groups or time).
#' @param partial a character string or character vector containing the labels
#' of the parameters which should be free in all groups or across
#' time to specify a partial measurement invariance model. Note
#' that the labels of the parameters need to match the labels
#' shown in the output, i.e., \code{"L"} with a number for factor
#' loadings, \code{"T"} with a number for intercepts, and
#' \code{"E"} with a number for factor residual variances. The
#' number attached to the \code{"L"}, \code{"T"}, or \code{"E"}
#' label corresponds to the number of the indicator in the
#' measurement model (e.g., \code{"T3"} for the intercept of
#' the third indicator). When specifying the model using the
#' argument \code{model}, however, the number for the factor
#' loading is a combination of the number of the factor and
#' the number of the indicator (e.g., \code{"L23"} is the third
#' indicator of the second factor). Note that at least two
#' invariant indicators are needed for a partial measurement
#' invariance model. Otherwise there might be issues with model
#' non-identification.
#' @param ident a character string indicating the method used for identifying
#' and scaling latent variables, i.e., \code{"marker"} for the
#' marker variable method fixing the first factor loading of
#' each latent variable to 1, \code{"var"} (default) for the
#' fixed variance method fixing the variance of each latent
#' variable to 1, or \code{"effect"} for the effects-coding
#' method using equality constraints so that the average of
#' the factor loading for each latent variable equals 1.
#' @param estimator a character string indicating the estimator to be used
#' (see 'Details' in the help page of the \code{item.cfa()}
#' function). By default, \code{"MLR"} is used for CFA models
#' with continuous indicators.
#' @param missing a character string indicating how to deal with missing data,
#' i.e., \code{"listwise"} for listwise deletion, \code{"pairwise"}
#' for pairwise deletion, \code{"fiml"} for full information
#' maximum likelihood method, \code{two.stage} for two-stage
#' maximum likelihood method, \code{robust.two.stage} for robust
#' two-stage maximum likelihood method, and \code{doubly-robust}
#' for doubly-robust method (see 'Details' in the help page
#' of the\code{item.cfa()} function). By default, \code{"fiml"}
#' is used for CFA models with continuous indicators which are
#' estimated by using \code{estimator = "MLR"}. However, argument
#' \code{missing} switches to \code{listwise} when the data
#' set is complete, i.e., it is not possible to use FIML in
#' complete data. Note that the robust CFI, TLI, and RMSEA
#' are different in complete data depending on whether FIML or
#' listwise deletion was specified when estimating the model
#' in lavaan.
#' @param null.model logical: if \code{TRUE} (default), the proper null model
#' for computing incremental fit indices (i.e., CFI and TLI)
#' is used, i.e., means and variances of the indicators are
#' constrained to be equal across group or time in the null
#' model (Little, 2013, p. 112).
#' @param print a character string or character vector indicating which results
#' to show on the console, i.e. \code{"all"} for all results,
#' \code{"summary"} for a summary of the specification of the
#' estimation method and missing data handling in lavaan,
#' \code{"coverage"} for the variance-covariance coverage of
#' the data, \code{"descript"} for descriptive statistics,
#' \code{"fit"} for model fit and model comparison, \code{"est"}
#' for parameter estimates, \code{"modind"} for modification
#' indices, and \code{"resid"} for the residual correlation
#' matrix and standardized residual means. By default, a summary
#' of the specification, model fit, and parameter estimates
#' are printed. Note that parameter estimates, modification
#' indices, and residual correlation matrix is only provided
#' for the model investigating the level of measurement
#' invariance specified in the argument \code{"invar"}.
#' @param print.fit a character string or character vector indicating which
#' version of the CFI, TLI, and RMSEA to show on the console
#' when using a robust estimation method involving a scaling
#' correction factor, i.e., \code{"all"} for all versions of
#' the CFI, TLI, and RMSEA, \code{"standard"} (default when
#' \code{estimator} is one of \code{"ML", "MLF", "GLS", "WLS", "DWLS", "ULS", "PML"})
#' for fit indices without any non-normality correction,
#' \code{"scaled"} for population-corrected robust fit indices
#' with ad hoc non-normality correction, and \code{robust}
#' (default when \code{estimator} is one of \code{"MLM", "MLMV,
#' "MLMVS", "MLR", "WLSM", "WLSMV", "ULSM", "ULSMV", "DLS"})
#' for sample-corrected robust fit indices based on formula
#' provided by Li and Bentler (2006) and Brosseau-Liard and
#' Savalei (2014).
#' @param mod.minval numeric value to filter modification indices and only show
#' modifications with a modification index value equal or higher
#' than this minimum value. By default, modification indices
#' equal or higher 6.63 are printed. Note that a modification
#' index value of 6.63 is equivalent to a significance level
#' of \eqn{\alpha = .01}.
#' @param resid.minval numeric value indicating the minimum absolute residual
#' correlation coefficients and standardized means to highlight
#' in boldface. By default, absolute residual correlation
#' coefficients and standardized means equal or higher 0.1
#' are highlighted. Note that highlighting can be disabled by
#' setting the minimum value to 1.
#' @param digits an integer value indicating the number of decimal places
#' to be used for displaying results. Note that information
#' criteria and chi-square test statistic are printed with
#' \code{digits} minus 1 decimal places.
#' @param p.digits an integer value indicating the number of decimal places
#' to be used for displaying \emph{p}-values, covariance coverage
#' (i.e., \code{p.digits - 1}), and residual correlation
#' coefficients.
#' @param as.na a numeric vector indicating user-defined missing values, i.e.,
#' these values are converted to \code{NA} before conducting
#' the analysis. Note that \code{as.na()} function is only
#' applied to \code{x} but not to \code{group} or \code{cluster}.
#' @param write a character string for writing the results into a Excel file
#' naming a file with or without file extension '.xlsx', e.g.,
#' \code{"Results.xlsx"} or \code{"Results"}.
#' @param check logical: if \code{TRUE}, argument specification is checked
#' and convergence and model identification checks are conducted
#' for all estimated models.
#' @param output logical: if \code{TRUE}, output is shown.
#'
#' @author
#' Takuya Yanagida \email{takuya.yanagida@@univie.ac.at}
#'
#' @seealso
#' \code{\link{item.cfa}}, \code{\link{multilevel.invar}}, \code{\link{write.result}}
#'
#' @references
#' Brosseau-Liard, P. E., & Savalei, V. (2014) Adjusting incremental fit indices
#' for nonnormality. \emph{Multivariate Behavioral Research, 49}, 460-470.
#' https://doi.org/10.1080/00273171.2014.933697
#'
#' Li, L., & Bentler, P. M. (2006). Robust statistical tests for evaluating the
#' hypothesis of close fit of misspecified mean and covariance structural models.
#' \emph{UCLA Statistics Preprint #506}. University of California.
#'
#' Little, T. D. (2013). \emph{Longitudinal structural equation modeling}. Guilford
#' Press.
#'
#' Rosseel, Y. (2012). lavaan: An R Package for Structural Equation Modeling.
#' \emph{Journal of Statistical Software, 48}, 1-36. https://doi.org/10.18637/jss.v048.i02
#'
#' @return
#' Returns an object of class \code{misty.object}, which is a list with following
#' entries:
#'
#' \item{\code{call}}{function call}
#' \item{\code{type}}{type of analysis}
#' \item{\code{data}}{data frame including all variables used in the analysis, i.e.,
#' indicators for the factor, grouping variable and cluster variable}
#' \item{\code{args}}{specification of function arguments}
#' \item{\code{model}}{list with specified model for the configural, metric, scalar,
#' and strict invariance model}
#' \item{\code{model.fit}}{list with fitted lavaan object of the configural, metric,
#' scalar, and strict invariance model}
#' \item{\code{check}}{list with the results of the convergence and model identification
#' check for the configural, metric, scalar, and strict invariance
#' model}
#' \item{\code{result}}{list with result tables, i.e., \code{summary} for the
#' summary of the specification of the estimation method and
#' missing data handling in lavaan, \code{coverage} for the
#' variance-covariance coverage of the data, \code{descript}
#' for descriptive statistics, \code{fit} for a list with
#' model fit based on standard, scaled, and robust fit indices,
#' \code{est} for a list with parameter estimates for the
#' configural, metric, scalar, and strict invariance model,
#' \code{modind} for the list with modification indices for
#' the configural, metric, scalar, and strict invariance model,
#' \code{score} for the list with result of the score tests
#' for constrained parameters for the configural, metric,
#' scalar, and strict invariance model, and \code{resid} for
#' the list with residual correlation matrices and standardized
#' residual means for the configural, metric, scalar, and
#' strict invariance model}
#'
#' @note
#' The function uses the functions \code{cfa}, \code{fitmeasures} ,\code{lavInspect},
#' \code{lavTech}, \code{lavTestLRT}, \code{lavTestScore}, \code{modindices},
#' \code{parameterEstimates}, \code{parTable}, and \code{standardizedsolution}
#' provided in the R package \pkg{lavaan} by Yves Rosseel (2012).
#'
#' @export
#'
#' @examples
#' \dontrun{
#' # Load data set "HolzingerSwineford1939" in the lavaan package
#' data("HolzingerSwineford1939", package = "lavaan")
#'
#' #------------------------------------------------
#' # Between-Group Measurement Invariance Evaluation
#'
#' #..................
#' # Measurement model with one factor
#'
#' # Specification of the grouping variable in 'x'
#' item.invar(HolzingerSwineford1939[, c("x1", "x2", "x3", "x4", "sex")], group = "sex")
#'
#' # Specification of the grouping variable in 'group'
#' item.invar(HolzingerSwineford1939[, c("x1", "x2", "x3", "x4")],
#' group = HolzingerSwineford1939$sex)
#'
#' # Alternative specification using the argument 'model'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"), group = "sex")
#'
#' #..................
#' # Measurement model with two factors
#'
#' item.invar(HolzingerSwineford1939,
#' model = list(c("x1", "x2", "x3", "x4"),
#' c("x5", "x6", "x7", "x8")), group = "sex")
#'
#' #..................
#' # Measurement model with two factors
#'
#' # Evaluate configural, metric, scalar, and strict measurement invariance
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", invar = "strict")
#'
#' #..................
#' # Partial measurement invariance
#'
#' # Free second factor loading (L2) and third intercept (T3)
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", partial = c("L2", "T3"), print = c("fit", "est"))
#'
#' #..................
#' # Residual covariances
#'
#' # One residual covariance
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' rescov = c("x3", "x4"), group = "sex")
#'
#' # Two residual covariances
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' rescov = list(c("x1", "x2"), c("x3", "x4")), group = "sex")
#'
#' #..................
#' # Scaled test statistic and cluster-robust standard errors
#'
#' # Specify cluster variable using a variable name in 'x'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", cluster = "agemo")
#'
#' # Specify vector of the cluster variable in the argument 'cluster'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", cluster = HolzingerSwineford1939$agemo)
#'
#' #..................
#' # Default Null model
#'
#' # Specify default null model for computing incremental fit indices
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", null.model = FALSE)
#'
#' #..................
#' # Print argument
#'
#' # Request all results
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = "all")
#'
#' # Request fit indices with ad hoc non-normality correction
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print.fit = "scaled")
#'
#' # Request modification indices with value equal or higher than 10
#' # and highlight residual correlations equal or higher than 0.3
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = c("modind", "resid"),
#' mod.minval = 10, resid.minval = 0.3)
#'
#' #..................
#' # Model syntax and lavaan summary of the estimated model
#'
#' mod <- item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", output = FALSE)
#'
#' # lavaan model syntax scalar invariance model
#' cat(mod$model$scalar)
#'
#' # lavaan summary of the scalar invariance model
#' lavaan::summary(mod$model.fit$scalar, standardized = TRUE, fit.measures = TRUE)
#'
#' #------------------------------------------------
#' # Longitudinal Measurement Invariance Evaluation
#'
#' # Two time points with three indicators at each time point
#' item.invar(HolzingerSwineford1939,
#' model = list(c("x1", "x2", "x3"),
#' c("x5", "x6", "x7")), long = TRUE)
#'
#' #------------------------------------------------
#' # Write Results into a Excel file
#'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = "all", write = "Invariance.xlsx", output = FALSE)
#'
#' result <- item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = "all", output = FALSE)
#' write.result(result, "Invariance.xlsx")
#' }
item.invar <- function(x, model = NULL, rescov = NULL, rescov.long = TRUE, group = NULL,
long = FALSE, cluster = NULL, invar = c("config", "metric", "scalar", "strict"),
partial = NULL, ident = c("marker", "var", "effect"),
estimator = c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR",
"GLS", "WLS", "DWLS", "WLSM", "WLSMV",
"ULS", "ULSM", "ULSMV", "DLS", "PML"),
missing = c("listwise", "pairwise", "fiml", "two.stage", "robust.two.stage", "doubly.robust"),
null.model = TRUE, print = c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid"),
print.fit = c("all", "standard", "scaled", "robust"), mod.minval = 6.63, resid.minval = 0.1,
digits = 3, p.digits = 3, as.na = NULL, write = NULL, check = TRUE, output = TRUE) {
#_____________________________________________________________________________
#
# Initial Check --------------------------------------------------------------
# Check if input 'x' is missing or NULL
if (isTRUE(missing(x) || is.null(x))) { stop("Please specify a matrix or data frame for the argument 'x'.", call. = FALSE) }
# Check if input 'x' is a matrix or a data frame
if (isTRUE(!is.matrix(x) && !is.data.frame(x))) { stop("Please specify a matrix or a data frame for the argument 'x'.", call. = FALSE) }
# Check if input 'model' is a character vector or list of character vectors
if (isTRUE(!is.null(model) && !all(sapply(model, is.character)))) { stop("Please specify a character vector or list of character vectors for the argument 'model'.", call. = FALSE) }
# Check if variables in input 'model' are available in input 'x'
if (isTRUE(!is.null(model) && any(!unlist(model) %in% colnames(x)))) { stop(paste0("Items specified in the argument 'model' were not found in 'x': ", paste(unique(unlist(model))[!unique(unlist(model)) %in% colnames(x)], collapse = ", ")), call. = FALSE) }
# Check if 'group' or 'long' is specified
if (isTRUE((is.null(group) && !long) || (!is.null(group) && long))) { stop("Please specify the argument 'group' to evaluate between-group measurement invariance or the argument 'long' to evaluate longitudinal measurement invariance.", call. = FALSE) }
# Check if 'model' is specified when evaluating longitudinal measurement invariance
if (isTRUE((long && is.null(model)) || (long && !is.list(model)))) { stop("Please specify a list of character vectors for the argument 'model' to evaluate longitudinal measurement invariance.", call. = FALSE) }
#_____________________________________________________________________________
#
# Input Check ----------------------------------------------------------------
# Check input 'check'
if (isTRUE(!is.logical(check))) { stop("Please specify TRUE or FALSE for the argument 'check'.", call. = FALSE) }
if (isTRUE(check)) {
## R package lavaan ##
if (isTRUE(!nzchar(system.file(package = "lavaan")))) { stop("Package \"lavaan\" is needed for this function, please install the package.", call. = FALSE) }
## Check input 'x' ##
if (isTRUE(is.null(model))) {
# No cluster or grouping variable in 'x'
if (isTRUE((is.null(cluster) || length(cluster) != 1L) && (is.null(group) || length(group) != 1L))) {
if (isTRUE(ncol(data.frame(x)) < 3L)) { stop("Please specify at least three indicators for the measurement model in 'x'.", call. = FALSE) }
# Cluster or grouping variable in 'x'
} else if (isTRUE( length(cluster) == 1L || length(group) == 1L)) {
if (isTRUE(ncol(data.frame(x)[, !colnames(data.frame(x)) %in% c(cluster, group), drop = FALSE]) < 3L)) { stop("Please specify at least three indicators for the measurement model in 'x'.", call. = FALSE) }
}
## Check input 'model' ##
} else {
# Character vector
if (isTRUE(!is.list(model))) {
if (isTRUE(length(unique(model)) < 3L)) { stop("Please specify at least three indicators for the measurement model.", call. = FALSE) }
# List
} else {
# One-factor model
if (isTRUE(length(model) == 1L && length(unique(unlist(model))) < 3L)) {
stop("Please specify at least three indicators for the measurement model.", call. = FALSE)
# Multiple-factor model
} else if (isTRUE(any(sapply(model, function(y) length(y) < 3L)))) {
stop("Please specify at least three indicators for each factor of the measurement model.", call. = FALSE)
}
}
}
## Check input 'rescov' ##
if (isTRUE(!is.null(rescov))) {
# Two variables for each residual covariance
if (isTRUE(is.list(rescov)) && any(sapply(rescov, length) != 2L)) {
stop("Please specify a list of character vectors for the argument 'rescov', where each element has two variable names", call. = FALSE)
} else {
if (isTRUE(length(rescov) != 2L)) {
stop("Please specify a character vector with two variable names for the argument 'rescov'", call. = FALSE)
}
}
# Model specification without 'model'
if (isTRUE(is.null(model))) {
rescov.items <- !unique(unlist(rescov)) %in% colnames(x)
if (isTRUE(any(rescov.items))) {
stop(paste0("Items specified in the argument 'rescov' were not found in 'x': ", paste(unique(unlist(rescov))[rescov.items], collapse = ", ")), call. = FALSE)
}
# Model specification with 'model'
} else {
rescov.items <- !unique(unlist(rescov)) %in% unique(unlist(model))
if (isTRUE(any(rescov.items))) {
stop(paste0("Items specified in the argument 'rescov' were not found in 'model': ", paste(unique(unlist(rescov))[rescov.items], collapse = ", ")), call. = FALSE)
}
}
}
## Check input 'rescov.long' ##
if (isTRUE(!is.logical(rescov.long))) { stop("Please specify TRUE or FALSE for the argument 'rescov.long'.", call. = FALSE) }
## Check input 'group' ##
if (isTRUE(!is.null(group))) {
# Name of the grouping variable in 'x'
if (isTRUE(length(group) == 1L)) {
# One grouping variable
if (isTRUE(!is.character(group))) { stop("Please specify a character string for the name of the grouping variable in 'x'", call. = FALSE) }
# Grouping variable in 'x'
if (isTRUE(!group %in% colnames(x))) { stop(paste0("Grouping variable \"", group, "\" specified in 'group' was not found in 'x'"), call. = FALSE) }
# Group variable
} else {
# Length of grouping variable
if (isTRUE(nrow(x) != length(group))) { stop("The grouping variable does not match with the number of rows in 'x'.",call. = FALSE) }
# Number of groups
if (isTRUE(length(unique(na.omit(group))) == 1L)) { stop("There is only one group represented in the grouping variable 'group'.", call. = FALSE) }
}
}
## Check input 'long' ##
if (isTRUE(!is.logical(long))) { stop("Please specify TRUE or FALSE for the argument 'long'.", call. = FALSE) }
if (isTRUE(long && !is.null(group))) { stop("Please specify the arguments for evaluating either between-group or longitudinal measurement invariance.", call. = FALSE) }
## Longitudinal measurement invariance ##
if (isTRUE(long)) {
# Model argument is NULL or not a list
if (isTRUE(is.null(model) || !is.list(model))) { stop("Please specify the measurement model for evaluating longitudinal measurement invariance using the argument 'model'.", call. = FALSE) }
# Not the same number of item across time
if (isTRUE(length(unique(sapply(model, length))) != 1L)) { stop("Please specify the same number of items measured at each time point in the argument 'model'.", call. = FALSE) }
}
## Check input 'cluster' ##
if (isTRUE(!is.null(cluster))) {
# Name of the cluster variable in 'x'
if (isTRUE(length(cluster) == 1L)) {
# One cluster variable
if (isTRUE(!is.character(cluster))) { stop("Please specify a character string for the name of the cluster variable in 'x'", call. = FALSE) }
# Cluster variable in 'x'
if (isTRUE(!cluster %in% colnames(x))) { stop(paste0("Cluster variable \"", cluster, "\" specified in 'cluster' was not found in 'x'"), call. = FALSE) }
# Cluster variable
} else {
# Length of cluster variable
if (isTRUE(nrow(x) != length(cluster))) { stop("The cluster variable does not match with the number of rows in 'x'.",call. = FALSE) }
# Number of groups
if (isTRUE(length(unique(na.omit(cluster))) == 1L)) { stop("There is only one group represented in the cluster variable 'cluster'.", call. = FALSE) }
}
}
## Check input 'invar' ##
if (isTRUE(!all(invar %in% c("config", "metric", "scalar", "strict")))) { stop("Character string in the argument 'invar' does not match with \"config\", \"metric\", \"scalar\", or \"scalar\".", call. = FALSE) }
## Check input 'partial' ##
if (isTRUE(any(!sapply(partial, function(y) sapply(strsplit(y, split = ""), function(z) any(c("L", "T", "E") %in% z)))))) { warning("Character string(s) in the argument 'partial' need to match the labels of the parameters starting with \"L\", \"T\", or \"E\".", call. = FALSE) }
## Check input 'ident' ##
if (isTRUE(!all(ident %in% c("marker", "var", "effect")))) { stop("Character string in the argument 'ident' does not match with \"marker\", \"var\", or \"effect\".", call. = FALSE) }
## Check input 'estimator' ##
if (isTRUE(!all(estimator %in% c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML")))) { stop("Character string in the argument 'estimator' does not match with \"ML\", \"MLM\", \"MLMV\", \"MLMVS\", \"MLF\", \"MLR\", \"GLS\", \"WLS\", \"DWLS\", \"WLSM\", \"WLSMV\", \"ULS\", \"ULSM\", \"ULSMV\", \"DLS\", or \"PML\".", call. = FALSE) }
## Check input 'missing' ##
if (isTRUE(!all(missing %in% c("listwise", "pairwise", "fiml", "two.stage", "robust.two.stage", "doubly.robust")))) { stop("Character string in the argument 'missing' does not match with \"listwise\", \"pairwise\", \"fiml\", \"two.stage\", \"robust.two.stage\", or \"doubly.robust\".", call. = FALSE) }
## Check input 'null.model' ##
if (isTRUE(!is.logical(long))) { stop("Please specify TRUE or FALSE for the argument 'null.model'.", call. = FALSE) }
## Check input 'print' ##
if (isTRUE(!all(print %in% c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid")))) { stop("Character strings in the argument 'print' do not all match with \"summary\", \"coverage\", \"descript\", \"fit\", \"est\", \"modind\", or \"resid\".", call. = FALSE) }
## Check input 'print.fit' ##
if (isTRUE(!all(print.fit %in% c("all", "standard", "scaled", "robust")))) { stop("Character strings in the argument 'print.fit' do not all match with \"standard\", \"scaled\", or \"robust\".", call. = FALSE) }
## Check input 'mod.minval' ##
if (isTRUE(mod.minval < 0L)) { stop("Please specify a value greater than or equal 0 for the argument 'mod.minval'.", call. = FALSE) }
## Check input 'resid.minval' ##
if (isTRUE(resid.minval < 0L)) { stop("Please specify a value greater than or equal 0 for the argument 'resid.minval'.", call. = FALSE) }
## Check input 'digits' ##
if (isTRUE(digits %% 1L != 0L || digits < 0L || digits == 0L)) { stop("Specify a positive integer number for the argument 'digits'.", call. = FALSE) }
# Check input 'p.digits'
if (isTRUE(p.digits %% 1L != 0L || p.digits < 0L)) { stop("Specify a positive integer number for the argument 'p.digits'.", call. = FALSE) }
## Check input 'output' ##
if (isTRUE(!is.logical(output))) { stop("Please specify TRUE or FALSE for the argument 'output'.", call. = FALSE) }
}
#_____________________________________________________________________________
#
# Data and Arguments ---------------------------------------------------------
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Manifest Variables ####
#...................
### Model specification with 'x' ####
if (isTRUE(is.null(model))) {
#### No cluster variable
if (isTRUE(is.null(cluster))) {
# Grouping variable by variable name
if (isTRUE(length(group) == 1L)) {
var <- colnames(x)[!colnames(x) %in% group]
# Grouping variable by vector
} else {
var <- colnames(x)
}
#### Cluster variable
} else {
if (isTRUE(length(cluster) == 1L)) {
# Grouping variable by variable name
if (isTRUE(length(group) == 1L)) {
var <- colnames(x)[!colnames(x) %in% c(group, cluster)]
# Grouping variable by vector
} else {
var <- colnames(x)[!colnames(x) %in% cluster]
}
}
}
#...................
### Model specification with 'model' ####
} else {
var <- unique(unlist(model))
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Data Frame with Cluster and Grouping Variable ####
#...................
### No cluster variable ####
if (isTRUE(is.null(cluster))) {
# Grouping variable by variable name
if (isTRUE(!is.null(group) && length(group) == 1L)) {
x <- data.frame(x[, var], .group = x[, group], stringsAsFactors = FALSE)
# Grouping variable by vector
} else if (isTRUE(!is.null(group) && length(group) > 1L)) {
x <- data.frame(x[, var], .group = group, stringsAsFactors = FALSE)
# No grouping variable
} else if (isTRUE(is.null(group))) {
x <- data.frame(x[, var], stringsAsFactors = FALSE)
}
#...................
### Cluster variable ####
} else {
# Cluster variable by variable name
if (isTRUE(length(cluster) == 1L)) {
# Grouping variable by variable name
if (isTRUE(!is.null(group) && length(group) == 1L)) {
x <- data.frame(x[, var], .group = x[, group], .cluster = x[, cluster], stringsAsFactors = FALSE)
# Grouping variable by vector
} else if (isTRUE(!is.null(group) && length(group) > 1L)) {
x <- data.frame(x[, var], .group = group, .cluster = x[, cluster], stringsAsFactors = FALSE)
# No grouping variable
} else if (isTRUE(is.null(group))) {
x <- data.frame(x[, var], .cluster = x[, cluster], stringsAsFactors = FALSE)
}
# Cluster variable by vector
} else {
# Grouping variable by variable name
if (isTRUE(!is.null(group) && length(group) == 1L)) {
x <- data.frame(x[, var], .group = x[, group], .cluster = cluster, stringsAsFactors = FALSE)
# Grouping variable by vector
} else if (isTRUE(!is.null(group) && length(group) > 1L)) {
x <- data.frame(x[, var], .group = group, .cluster = cluster, stringsAsFactors = FALSE)
# No grouping variable
} else if (isTRUE(is.null(group))) {
x <- data.frame(x[, var], .cluster = cluster, stringsAsFactors = FALSE)
}
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Number of Groups ####
if (isTRUE(!is.null(group))) { ngroups <- length(unique(na.omit(x$.group))) }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Convert User-Missing Values into NA ####
if (isTRUE(!is.null(as.na))) {
x[, var] <- misty::as.na(x[, var], na = as.na, check = check)
# Variable with missing values only
x.miss <- vapply(x[, var], function(y) all(is.na(y)), FUN.VALUE = logical(1L))
if (isTRUE(any(x.miss))) {
stop(paste0("After converting user-missing values into NA, following ",
ifelse(length(which(x.miss)) == 1L, "variable is ", "variables are "), "completely missing: ",
paste(names(which(x.miss)), collapse = ", ")), call. = FALSE)
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Check variance within groups ##
if (isTRUE(!long)) {
check.var <- sapply(split(x, f = x$.group), function(y) apply(y[, var], 2L, var, na.rm = TRUE))
if (isTRUE(any(check.var == 0 | is.na(check.var)))) {
stop(paste0("There is no variance in group ", paste(names(which(apply(check.var, 2L, function(y) any(y == 0 | is.na(y))))), collapse = ", "), " for following variable: ", paste(names(which(apply(check.var, 1L, function(y) any(y == 0 | is.na(y))))), collapse = ", ")), call. = FALSE)
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model ####
# Factor labels for evaluating between-group measurement invariance
if (isTRUE(!is.null(model) && is.list(model) && (is.null(names(model)) || any(names(model) == "")))) {
if (isTRUE(!long)) {
names(model) <- paste0("f", seq_along(model))
} else {
names(model) <- paste0("t", seq_along(model))
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Residual Covariance ####
if (isTRUE(!is.null(rescov) && !is.list(rescov))) { rescov <- list(rescov) }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Level of invariance ####
if (isTRUE(all(c("config", "metric", "scalar", "strict") %in% invar))) {
invar <- "scalar"
} else if (isTRUE(length(invar) != 1L)) {
stop("Please specify a character string for the argument 'invar'.", call. = FALSE)
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model identification ####
# Default setting, fixed factor method
if (isTRUE(all(c("marker", "var", "effect") %in% ident))) {
ident <- "var"
} else if (isTRUE(length(ident) != 1L)) {
stop("Please specify a character string for the argument 'ident'.", call. = FALSE)
}
# Specify arguments 'std.lv' and 'effet.coding'
if (isTRUE(ident == "marker")) {
std.lv <- FALSE
effect.coding <- FALSE
} else if (isTRUE(ident == "var")) {
std.lv <- TRUE
effect.coding <- FALSE
} else if (isTRUE(ident == "effect")) {
std.lv <- FALSE
effect.coding <- TRUE
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Ordered ####
# Ordered-categorical indicators
ordered <- FALSE
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Estimator ####
#...................
### Default setting ####
if (isTRUE(all(c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML") %in% estimator))) {
# Continuous indicators
if (isTRUE(!ordered)) {
if (isTRUE(all(c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML") %in% estimator ))) { estimator <- "MLR" }
# Categorical indicators
} else {
if (isTRUE(all(c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML") %in% estimator))) { estimator <- "WLSMV" }
# Cluster-robust standard errors
if (isTRUE(!is.null(cluster))) {
stop("Cluster-robust standard errors are not available with ordered-categorical indicators.", call. = FALSE)
}
}
#...................
### User-specified ####
} else {
# Continuous indicators
if (isTRUE(!ordered)) {
# Cluster-robust standard errors
if (isTRUE(!is.null(cluster) && !estimator %in% c("MLR", "MLM", "MLMV", "MLMVS"))) {
warning("Estimator switched to \"MLR\" to computer cluster-robust standard errors.", call. = FALSE)
estimator <- "MLR"
}
# Categorical indicators
} else {
# Cluster-robust standard errors
if (isTRUE(is.null(cluster))) {
if (isTRUE(!estimator %in% c("WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "PML"))) {
warning("Estimator switched to \"WLSMV\" to deal with ordered-categorical indicators.", call. = FALSE)
estimator <- "WLSMV"
}
} else {
stop("Cluster-robust standard errors are not available with ordered-categorical indicators.", call. = FALSE)
}
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Missing ####
# Any missing values
if (isTRUE(any(is.na(x[, var])))) {
complete <- FALSE
#...................
### Default setting ####
if (isTRUE(all(c("listwise", "pairwise", "fiml", "two.stage", "robust.two.stage", "doubly.robust") %in% missing))) {
if (isTRUE(estimator %in% c("ML", "MLF", "MLR"))) {
missing <- "fiml"
} else if (isTRUE(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS"))) {
missing <- "listwise"
} else if (isTRUE(estimator %in% c("DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML"))) {
missing <- "pairwise"
}
#...................
### User-specified ####
} else {
# FIML
if (isTRUE(missing == "fiml" && !estimator %in% c("ML", "MLF", "MLR"))) {
warning(paste0("FIML method is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS", "DLS"), "\"listwise\"", "\"pairwise\""), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS", "DLS"), "listwise", "pairwise")
}
# Pairwise deletion
if (isTRUE(missing == "pairwise" && !estimator %in% c("ML", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "PML"))) {
warning(paste0("Pairwise deletion is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("MLF", "MLR"), "\"fiml\"", "\"listwise\""), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("MLF", "MLR"), "fiml", "listwise")
}
# (Robust) Two-stage
if (isTRUE(missing %in% c("two.stage", "robust.two.stage") && !estimator %in% c("ML", "MLF", "MLR"))) {
warning(paste0("Two-stage method is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "PML"), "\"pairwise\"", "\"listwise\""), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "PML"), "pairwise", "listwise")
}
# Doubly-robust
if (isTRUE(missing == "doubly.robust" && estimator != "PML")) {
warning(paste0("Doubly-robust method is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("ML", "MLF", "MLR"), "fiml\"", ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS"), "\"listwise\"", "\"pairwise\"")), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("ML", "MLF", "MLR"), "fiml", ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS"), "listwise", "pairwise"))
}
}
} else {
missing <- "listwise"
complete <- TRUE
}
# Cases with missing on all variables
if (isTRUE(missing %in% c("fiml", "two.stage", "robust.two.stage"))) {
x.na.prop <- misty::na.prop(x[, var])
if (any(x.na.prop == 1L)) {
warning(paste("Data set contains", sum(x.na.prop == 1L), "cases with missing on all variables which were not included in the analysis."), call. = FALSE)
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Print ####
if (isTRUE(all(c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid") %in% print))) {
print <- c("summary", "fit")
} else if (isTRUE(length(print) == 1L && "all" %in% print)) {
print <- c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid")
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Print Fit ####
if (isTRUE(all(c("all", "standard", "scaled", "robust") %in% print.fit))) {
print.fit <- "robust"
} else if (isTRUE(length(print.fit) == 1L && "all" %in% print.fit)) {
if (isTRUE(estimator == "ML")) { print.fit <- "standard" } else { print.fit <- c("standard", "scaled", "robust") }
}
# Standard fit measures
if (isTRUE(estimator %in% c("ML", "MLMVS", "MLF", "GLS", "WLS", "DWLS", "ULS", "PML"))) { print.fit <- "standard" }
#_____________________________________________________________________________
#
# Main Function --------------------------------------------------------------
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Covariance Coverage ####
coverage <- NULL
if (isTRUE("coverage" %in% print)) {
### Grouping variable
if (isTRUE(is.null(group))) {
coverage <- suppressWarnings(misty::na.coverage(x[, var], output = FALSE)$result)
### No grouping variable
} else {
coverage <- suppressWarnings(lapply(split(x[, var], f = x[, ".group"]), function(y) misty::na.coverage(y, output = FALSE)$result))
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Sample Statistics ####
itemstat <- itemfreq <- NULL
if (isTRUE("descript" %in% print)) {
### No grouping variable
if (isTRUE(is.null(group))) {
# Descriptive statistics
itemstat <- suppressWarnings(misty::descript(x[, var], output = FALSE)$result[, c("variable", "n", "nNA", "pNA", "m", "sd", "min", "max", "skew", "kurt")])
# Frequency table
itemfreq <- suppressWarnings(misty::freq(x[, var], val.col = TRUE, exclude = 9999, output = FALSE)$result)
### Grouping variable
} else {
# Descriptive statistics
itemstat <- suppressWarnings(misty::descript(x[, var], group = x[, ".group"], output = FALSE)$result[, c("group", "variable", "n", "nNA", "pNA", "m", "sd", "min", "max", "skew", "kurt")])
# Frequency table
itemfreq <- suppressWarnings(lapply(split(x[, var], f = x[, ".group"]), function(y) misty::freq(y, val.col = TRUE, exclude = 9999, output = FALSE)$result))
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Syntax ####
#...................
### Latent variable ####
#### Between-group measurement invariance ####
if (isTRUE(!long)) {
##### Model specification with 'x'
if (isTRUE(is.null(model) || !is.list(model))) {
# Configural
mod.factor.config <- paste("f =~", paste(var, collapse = " + "))
# Metric
mod.factor.metric <- paste("f =~", paste0("L", seq_along(var), "*", var, collapse = " + "))
##### Model specification with 'model'
} else if (isTRUE(!is.null(model) && is.list(model))) {
# Configural
mod.factor.config <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0(model[[y]], collapse = " + "))), collapse = " \n")
# Metric
mod.factor.metric <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0("L", y, seq_along(model[[y]]), "*", model[[y]], collapse = " + "))), collapse = " \n")
}
#...................
### Intercept ####
# Scalar
mod.inter.scalar <- paste0(var, " ~ T", seq_along(var), "*1", collapse = " \n")
#...................
### Residual Variance ####
# Strict
mod.resid.strict <- paste0(var, " ~~ E", seq_along(var), "*", var, collapse = " \n")
#### Longitudinal measurement invariance ####
} else {
#...................
### Latent variable ####
# Configural
mod.factor.config <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0(model[[y]], collapse = " + "))), collapse = " \n")
# Metric
mod.factor.metric <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0("L", seq_along(model[[y]]), "*", model[[y]], collapse = " + "))), collapse = " \n")
#...................
### Intercept ####
# Scalar
mod.inter.scalar <- paste(sapply(seq_along(model), function(y) paste(model[[y]], "~", paste0("T", seq_along(model[[y]]), "*1"))), collapse = " \n")
#...................
### Residual Variance ####
# Strict
mod.resid.strict <- paste(sapply(seq_along(model), function(y) paste(model[[y]], "~~", paste0("E", seq_along(model[[y]]), "*", model[[y]]))), collapse = " \n")
}
#...................
### Residual covariances ####
if (isTRUE(!is.null(rescov))) {
# Paste residual covariances
mod.rescov <- paste(vapply(rescov, function(y) paste(y, collapse = " ~~ "), FUN.VALUE = character(1L)), collapse = " \n ")
}
#...................
### Residual covariances between parallel indicators ####
mod.rescov.long <- NULL
if (isTRUE(long && rescov.long)) {
# Paste longitudinal residual covariances
mod.rescov.long <- paste(apply(matrix(unlist(model), nrow = length(model), byrow = TRUE), 2L, function(y) apply(combn(y, m = 2L), 2L, function(z) paste0(z[1L], " ~~ ", z[2L]))), collapse = "\n")
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Specification ####
mod.metric <- mod.scalar <- mod.strict <- NULL
#...................
### Between-group measurement invariance ####
if (isTRUE(!long)) {
#### Configural measurement invariance ####
mod.config <- mod.factor.config
##### Marker variable method
if (isTRUE(ident == "marker")) {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Fix intercept of first indicator at 0 and estimate latent mean
mod.config <- paste0(mod.config, "\n",
paste0(misty::chr.trim(unlist(strsplit(mod.config, "=~"))[[1L]]), " ~ NA*1"), "\n",
paste0(var[1L], " ~ 0*1"))
# Multiple factor model
} else {
# Fix intercept of first indicators at 0 and estimate latent means
mod.config <- paste0(mod.config, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
}
}
#### Metric measurement invariance ####
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric <- mod.factor.metric
##### Marker variable method
switch (ident, marker = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Fix intercept of first indicator at 0 and estimate latent mean
mod.metric <- paste0(mod.metric, "\n",
paste0(misty::chr.trim(unlist(strsplit(mod.metric, "=~"))[[1L]]), " ~ NA*1"), "\n",
paste0(var[1L], " ~ 0*1"))
# Multiple factor model
} else {
# Fix intercept of first indicators at 0 and estimate latent means
mod.metric <- paste0(mod.metric, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
}
##### Fixed factor method
}, var = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
factor <- misty::chr.trim(unlist(strsplit(mod.metric, "=~"))[[1L]])
# Fix factor variance in the first group at 1, but estimate parameter in all other groups
mod.metric <- paste0(mod.metric, "\n",
paste0(factor, " ~~ c(1, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*", factor))
# Multiple factor model
} else {
# Fix factor variance in the first group at 1, but estimate parameter in all other groups
mod.metric <- paste0(mod.metric, "\n",
paste(sapply(names(model), function(y) paste0(y, " ~~ c(1, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*", y)), collapse = " \n"))
}
})
##### Free loadings for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("L", partial)))) { mod.metric <- misty::chr.gsub(paste0(partial[grepl("L", partial)], "*"), "", mod.metric, fixed = TRUE, recycle = TRUE) }
}
#### Scalar measurement invariance ####
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
##### Marker variable method
switch (ident, marker = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Constrain intercepts to be equal across groups (except the first intercept)
mod.scalar <- paste0(mod.metric, "\n",
paste0(unlist(strsplit(mod.inter.scalar, "\n"))[-1L], collapse = "\n"))
} else {
# Constrain intercepts to be equal across groups (except the first intercept)
mod.scalar <- paste0(mod.metric, "\n",
paste(unlist(strsplit(mod.inter.scalar, "\n"))[-sapply(model, function(y) grep(y[1L], unlist(strsplit(mod.inter.scalar, "\n"))))], collapse = "\n"))
}
##### Fixed factor method
}, var = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Constrain intercepts to be equal across groups and estimate latent means (except the first group)
mod.scalar <- paste0(mod.metric, "\n",
paste0(factor, " ~ c(0, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*", "1"), "\n",
mod.inter.scalar)
} else {
# Constrain intercepts to be equal across groups and estimate latent means (except the first group)
mod.scalar <- paste0(mod.metric, "\n",
paste(sapply(names(model), function(y) paste0(y, " ~ c(0, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*1")), collapse = " \n"), "\n",
mod.inter.scalar)
}
##### Effects coding method
}, effect = {
mod.scalar <- paste0(mod.metric, "\n", mod.inter.scalar)
})
##### Free intercepts for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("T", partial)))) { mod.scalar <- misty::chr.gsub(paste0(partial[grepl("T", partial)], "*"), "", mod.scalar, fixed = TRUE, recycle = TRUE) }
}
#### Strict measurement invariance ####
if (isTRUE("strict" %in% invar)) {
mod.strict <- paste0(mod.scalar, "\n", mod.resid.strict)
##### Free residuals for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("E", partial)))) { mod.strict <- misty::chr.gsub(paste0(partial[grepl("E", partial)], "*"), "", mod.strict, fixed = TRUE, recycle = TRUE) }
}
#...................
### Longitudinal measurement invariance ####
} else {
#### Configural measurement invariance ####
mod.config <- mod.factor.config
##### Marker variable method
if (isTRUE(ident == "metric")) {
# Fix intercept of first indicators at 0 and estimate latent means
mod.config <- paste0(mod.config, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
}
#### Metric measurement invariance ####
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric <- mod.factor.metric
##### Marker variable method
switch (ident, marker = {
# Fix intercept of first indicators at 0 and estimate latent means
mod.metric <- paste0(mod.metric, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
##### Fixed factor method
}, var = {
# Fix factor variance in the first group at 1, but estimate parameter in all other groups
mod.metric <- paste0(mod.metric, "\n",
paste0(sapply(names(model)[-1L], function(y) paste0(y, " ~~ NA*", y)), collapse = " \n"))
})
##### Free loadings for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("L", partial)))) { mod.metric <- misty::chr.gsub(paste0(partial[grepl("L", partial)], "*"), "", mod.metric, fixed = TRUE, recycle = TRUE) }
}
#### Scalar measurement invariance ####
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
##### Marker variable method
switch (ident, marker = {
# Constrain intercepts to be equal across groups (except the first intercept)
mod.scalar <- paste0(mod.metric, "\n",
paste(unlist(strsplit(mod.inter.scalar, "\n"))[-sapply(model, function(y) grep(y[1L], unlist(strsplit(mod.inter.scalar, "\n"))))], collapse = "\n"))
##### Fixed factor method
}, var = {
# Constrain intercepts to be equal across groups and estimate latent means (except the first group)
mod.scalar <- paste0(mod.metric, "\n",
paste0(sapply(names(model)[-1L], function(y) paste0(y, " ~ NA*1")), collapse = " \n"), "\n",
mod.inter.scalar)
##### Effects coding method
}, effect = {
mod.scalar <- paste0(mod.metric, "\n", mod.inter.scalar)
})
##### Free intercepts for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("T", partial)))) { mod.scalar <- misty::chr.gsub(paste0(partial[grepl("T", partial)], "*"), "", mod.scalar, fixed = TRUE, recycle = TRUE) }
}
#### Strict measurement invariance ####
if (isTRUE("strict" %in% invar)) {
mod.strict <- paste0(mod.scalar, "\n", mod.resid.strict)
}
##### Free residual variances for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("E", partial)))) { mod.strict <- misty::chr.gsub(paste0(partial[grepl("E", partial)], "*"), "", mod.strict, fixed = TRUE, recycle = TRUE) }
}
#...................
### Residual covariances ####
if (isTRUE(!is.null(rescov))) {
mod.config <- paste0(mod.config, "\n", mod.rescov)
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric <- paste0(mod.metric, "\n", mod.rescov) }
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar <- paste0(mod.scalar, "\n", mod.rescov) }
if (isTRUE("strict" %in% invar)) { mod.strict <- paste0(mod.strict, "\n", mod.rescov) }
}
#...................
### Residual covariances between parallel indicators ####
if (isTRUE(long)) {
mod.config <- paste0(mod.config, "\n", mod.rescov.long)
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric <- paste0(mod.metric, "\n", mod.rescov.long) }
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar <- paste0(mod.scalar, "\n", mod.rescov.long) }
if (isTRUE("strict" %in% invar)) { mod.strict <- paste0(mod.strict, "\n", mod.rescov.long) }
}
#...................
### Proper Null model ####
if (isTRUE(null.model)) {
#...................
### Between-group measurement invariance ####
if (isTRUE(!long)) {
mod.null <- paste0(# Covariances
c(apply(combn(var, m = 2L), 2L, function(y) paste0(y[1L], " ~~ 0*", y[2L])),
# Intercepts
sapply(seq_along(var), function(y) paste0(var[y], " ~ T", y, "*1")),
# Variance
sapply(seq_along(var), function(y) paste0(var[y], " ~~ V", y, "*", var[y]))), collapse = "\n")
#...................
### Longitudinal measurement invariance ####
} else {
mod.null <- paste0(# Covariances
c(apply(combn(var, m = 2L), 2L, function(y) paste0(y[1L], " ~~ 0*", y[2L])),
# Intercepts
sapply(seq_along(model), function(y) paste0(model[[y]], " ~ T", seq_along(model[[y]]), "*1")),
# Variance
sapply(seq_along(model), function(y) paste0(model[[y]], " ~~ V", seq_along(model[[y]]), "*", model[[y]]))), collapse = "\n")
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Function for Convergence and Model Identification Checks ####
conv.ident <- function(model.fit, invar) {
check.vcov <- check.theta <- check.cov.lv <- TRUE
switch(invar, config = {
invar.upp <- "Configural"
invar.low <- "configural"
}, metric = {
invar.upp <- "Metric"
invar.low <- "metric"
}, scalar = {
invar.upp <- "Scalar"
invar.low <- "scalar"
}, strict = {
invar.upp <- "Strict"
invar.low <- "strict"
})
#...................
### Model convergence ####
#### Model not converged
if (isTRUE(!lavaan::lavInspect(model.fit, what = "converged"))) {
stop(paste0(invar.upp, " invariance model did not converge."), call. = FALSE)
#### Model converged
} else {
#...................
### Degrees of freedom ####
if (isTRUE(suppressWarnings(lavaan::lavInspect(model.fit, what = "fit")["df"] < 0L))) { stop(paste0(invar.upp, " invariance model has negative degrees of freedom, model is not identified."), call. = FALSE) }
#...................
### Standard error ####
if (isTRUE(any(is.na(unlist(lavaan::lavInspect(model.fit, what = "se")))))) { stop(paste0("Standard errors of the ", invar.low, " invariance model could not be computed."), call. = FALSE) }
#...................
### Variance-covariance matrix of the estimated parameters ####
eigvals <- eigen(lavaan::lavInspect(model.fit, what = "vcov"), symmetric = TRUE, only.values = TRUE)$values
# Correct for equality constraints
if (isTRUE(any(lavaan::parTable(model.fit)$op == "=="))) { eigvals <- rev(eigvals)[-seq_len(sum(lavaan::parTable(model.fit)$op == "=="))] }
if (isTRUE(min(eigvals) < .Machine$double.eps^(3L/4L))) {
warning(paste0("The variance-covariance matrix of the estimated parameters in the ", invar.low, " invariance model is not positive definite."), call. = FALSE)
check.vcov <- FALSE
}
#...................
### Negative variance of observed variables ####
if (isTRUE(!long)) {
cond.theta1 <- any(sapply(lavaan::lavInspect(model.fit, what = "theta"), diag) < 0)
cond.theta2 <- any(sapply(lavaan::lavTech(model.fit, what = "theta"), function(y) eigen(y, symmetric = TRUE, only.values = TRUE)$values) < (-1L * .Machine$double.eps^(3L/4L)))
} else {
cond.theta1 <- any(diag(lavaan::lavInspect(model.fit, what = "theta")) < 0L)
cond.theta2 <- any(eigen(lavaan::lavTech(model.fit, what = "theta")[[1L]], symmetric = TRUE, only.values = TRUE)$values < (-1L * .Machine$double.eps^(3L/4L)))
}
if (isTRUE(cond.theta1)) {
warning(paste0("Some estimated variances of the observed variables in the ", invar.low, " invariance model are negative."), call. = FALSE)
check.theta <- FALSE
} else if (isTRUE(cond.theta2)) {
warning(paste0("The model-implied variance-covariance matrix of the residuals of the observed variables in the ", invar.low, " invariance model is not positive definite."), call. = FALSE)
check.theta <- FALSE
}
#...................
### Negative variance of latent variables ####
if (isTRUE(!long)) {
cond.theta1 <- any(sapply(lavaan::lavTech(model.fit, what = "cov.lv"), diag) < 0L)
cond.theta1 <- any(sapply(lavaan::lavTech(model.fit, what = "cov.lv"), function(y) eigen(y, symmetric = TRUE, only.values = TRUE)$values) < (-1L * .Machine$double.eps^(3L/4L)))
} else {
cond.theta1 <- any(diag(lavaan::lavTech(model.fit, what = "cov.lv")[[1L]]) < 0L)
cond.theta2 <- any(eigen(lavaan::lavTech(model.fit, what = "cov.lv")[[1L]], symmetric = TRUE, only.values = TRUE)$values < (-1L * .Machine$double.eps^(3L/4L)))
}
if (isTRUE(cond.theta1)) {
warning(paste0("Some estimated variances of the latent variables in the ", invar.low, " invariance model are negative."), call. = FALSE)
check.cov.lv <- FALSE
# Model-implied variance-covariance matrix of the latent variables
} else if (isTRUE(cond.theta2)) {
warning("The model-implied variance-covariance matrix of the latent variables in the ", invar.low, " invariance model is not positive definite.", call. = FALSE)
check.cov.lv <- FALSE
}
}
# Return object
return(c(check.vcov = check.vcov, check.theta = check.theta, check.cov.lv = check.cov.lv))
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Estimation ####
mod.config.fit <- mod.metric.fit <- mod.scalar.fit <- mod.strict.fit <- mod.config.fit.check <- mod.metric.fit.check <- mod.scalar.fit.check <- mod.strict.fit.check <- NULL
#...................
### Configural measurement invariance
mod.config.fit <- suppressWarnings(lavaan::cfa(mod.config, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.config.fit.check <- conv.ident(mod.config.fit, invar = "config") }
#...................
### Metric measurement invariance
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric.fit <- suppressWarnings(lavaan::cfa(mod.metric, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.metric.fit.check <- conv.ident(mod.metric.fit, invar = "metric") }
}
#...................
### Scalar measurement invariance
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
mod.scalar.fit <- suppressWarnings(lavaan::cfa(mod.scalar, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.scalar.fit.check <- conv.ident(mod.scalar.fit, invar = "scalar") }
}
#...................
### Strict measurement invariance
if (isTRUE("strict" %in% invar)) {
mod.strict.fit <- suppressWarnings(lavaan::cfa(mod.strict, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.strict.fit.check <- conv.ident(mod.strict.fit, invar = "strict") }
}
#...................
### Proper Null model ####
if (isTRUE(null.model)) {
mod.null.fit <- suppressWarnings(lavaan::cfa(mod.null, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Chi-Squared Difference Test ####
#...................
### Configural vs. metric measurement invariance
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
chidiff.conf.met <- tryCatch(lavaan::lavTestLRT(mod.config.fit, mod.metric.fit),
error = function(y) { data.frame(matrix(NA, ncol = 7L, dimnames = list(NULL, c("Df", "AIC", "BIC", "Chisq", "Chisq diff", "Df diff", "Pr(>Chisq)"))), check.names = FALSE) },
warning = function(z) { suppressWarnings(lavaan::lavTestLRT(mod.config.fit, mod.metric.fit, method = "satorra.bentler.2010")) })
}
#...................
### Metric vs. scalar measurement invariance
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
chidiff.met.sca <- tryCatch(lavaan::lavTestLRT(mod.metric.fit, mod.scalar.fit),
error = function(y) { data.frame(matrix(NA, ncol = 7L, dimnames = list(NULL, c("Df", "AIC", "BIC", "Chisq", "Chisq diff", "Df diff", "Pr(>Chisq)"))), check.names = FALSE) },
warning = function(z) { suppressWarnings(lavaan::lavTestLRT(mod.metric.fit, mod.scalar.fit, method = "satorra.bentler.2010")) })
}
#...................
### Strong vs. strict measurement invariance
if (isTRUE(invar == "strict")) {
chidiff.sca.str <- tryCatch(lavaan::lavTestLRT(mod.scalar.fit, mod.strict.fit),
error = function(y) { data.frame(matrix(NA, ncol = 7L, dimnames = list(NULL, c("Df", "AIC", "BIC", "Chisq", "Chisq diff", "Df diff", "Pr(>Chisq)"))), check.names = FALSE) },
warning = function(z) { suppressWarnings(lavaan::lavTestLRT(mod.scalar.fit, mod.strict.fit, method = "satorra.bentler.2010")) })
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Fit ####
#### Configural invariance model
lav.fit.config <- suppressWarnings(lavaan::fitmeasures(mod.config.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL }))
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { lav.fit.metric <- suppressWarnings(lavaan::fitmeasures(mod.metric.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL })) } else { lav.fit.metric <- NULL }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { lav.fit.scalar <- suppressWarnings(lavaan::fitmeasures(mod.scalar.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL })) } else { lav.fit.scalar <- NULL }
#### Strict invariance model
if (isTRUE(invar == "strict")) { lav.fit.strict <- suppressWarnings(lavaan::fitmeasures(mod.strict.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL })) } else { lav.fit.strict <- NULL }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Parameter estimates ####
mod.metric.param <- mod.scalar.param <- mod.strict.param <- NULL
if (isTRUE(!long)) {
#### Configural invariance model
mod.config.param <- within(data.frame(lavaan::parameterEstimates(mod.config.fit), stdyx = lavaan::standardizedsolution(mod.config.fit)[, "est.std"]), assign("label", ""))[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")]
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric.param <- data.frame(lavaan::parameterEstimates(mod.metric.fit), stdyx = lavaan::standardizedsolution(mod.metric.fit)[, "est.std"])[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar.param <- data.frame(lavaan::parameterEstimates(mod.scalar.fit), stdyx = lavaan::standardizedsolution(mod.scalar.fit)[, "est.std"])[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Strict invariance model
if (isTRUE(invar == "strict")) { mod.strict.param <- data.frame(lavaan::parameterEstimates(mod.strict.fit), stdyx = lavaan::standardizedsolution(mod.strict.fit)[, "est.std"])[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
} else {
#### Configural invariance model
mod.config.param <- within(data.frame(lavaan::parameterEstimates(mod.config.fit), stdyx = lavaan::standardizedsolution(mod.config.fit)[, "est.std"]), assign("label", ""))[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")]
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric.param <- data.frame(lavaan::parameterEstimates(mod.metric.fit), stdyx = lavaan::standardizedsolution(mod.metric.fit)[, "est.std"])[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar.param <- data.frame(lavaan::parameterEstimates(mod.scalar.fit), stdyx = lavaan::standardizedsolution(mod.scalar.fit)[, "est.std"])[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Strict invariance model
if (isTRUE(invar == "strict")) { mod.strict.param <- data.frame(lavaan::parameterEstimates(mod.strict.fit), stdyx = lavaan::standardizedsolution(mod.strict.fit)[, "est.std"])[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Modification Indices ####
mod.config.modind <- mod.metric.modind <- mod.scalar.modind <- mod.strict.modind <- NULL
if (isTRUE(estimator != "PML" && "modind" %in% print)) {
#### Configural invariance model
mod.config.modind <- tryCatch(lavaan::modindices(mod.config.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.config.modind))) { mod.config.modind <- misty::df.rename(mod.config.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric.modind <- tryCatch(lavaan::modindices(mod.metric.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.metric.modind))) { mod.metric.modind <- misty::df.rename(mod.metric.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
}
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
mod.scalar.modind <- tryCatch(lavaan::modindices(mod.scalar.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.scalar.modind))) { mod.scalar.modind <- misty::df.rename(mod.scalar.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
}
#### Strict invariance model
if (isTRUE(invar == "strict")) {
mod.strict.modind <- tryCatch(lavaan::modindices(mod.strict.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.strict.modind))) { mod.strict.modind <- misty::df.rename(mod.strict.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Score Test ####
mod.metric.score <- mod.scalar.score <- mod.strict.score <- NULL
if (isTRUE("modind" %in% print)) {
if (isTRUE(estimator != "PML")) {
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric.score <- tryCatch(lavaan::lavTestScore(mod.metric.fit, epc = TRUE, warn = FALSE), error = function(y) NULL, warning = function(z) {}) }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar.score <- tryCatch(lavaan::lavTestScore(mod.scalar.fit, epc = TRUE, warn = FALSE), error = function(y) NULL, warning = function(z) {}) }
#### Strict invariance model
if (isTRUE(invar == "strict")) { mod.strict.score <- tryCatch(lavaan::lavTestScore(mod.strict.fit, epc = TRUE, warn = FALSE), error = function(y) NULL, warning = function(z) {}) }
}
#### Metric invariance model
if (isTRUE(!is.null(mod.metric.score))) {
# Parameter table
partable <- lavaan::parTable(mod.metric.fit)
# Univariate score statistics
uniscore <- mod.metric.score$uni
# Effects coding
if (isTRUE(ident == "effect")) { uniscore <- uniscore[-grep("-", uniscore$rhs), ] }
# Expected parameter change
epcscore <- mod.metric.score$epc
# Between-group measurement invariance
if (isTRUE(!long)) {
mod.metric.score <- data.frame(label = NA, group.lhs = NA, group.rhs = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.metric.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
group.lhs = partable[partable$plabel == uniscore[i, "lhs"], "group"],
group.rhs = partable[partable$plabel == uniscore[i, "rhs"], "group"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
# Longitudinal measurement invariance
} else {
mod.metric.score <- data.frame(label = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.metric.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
}
}
#### Scalar invariance model
if (isTRUE(!is.null(mod.scalar.score))) {
# Parameter table
partable <- lavaan::parTable(mod.scalar.fit)
# Univariate score statistics
uniscore <- mod.scalar.score$uni
# Expected parameter change
epcscore <- mod.scalar.score$epc
# Between-group measurement invariance
if (isTRUE(!long)) {
mod.scalar.score <- data.frame(label = NA, group.lhs = NA, group.rhs = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.scalar.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
group.lhs = partable[partable$plabel == uniscore[i, "lhs"], "group"],
group.rhs = partable[partable$plabel == uniscore[i, "rhs"], "group"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
# Longitudinal measurement invariance
} else {
mod.scalar.score <- data.frame(label = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.scalar.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
}
}
#### Strict invariance model
if (isTRUE(!is.null(mod.strict.score))) {
# Parameter table
partable <- lavaan::parTable(mod.strict.fit)
# Univariate score statistics
uniscore <- mod.strict.score$uni
# Expected parameter change
epcscore <- mod.strict.score$epc
# Between-group measurement invariance
if (isTRUE(!long)) {
mod.strict.score <- data.frame(label = NA, group.lhs = NA, group.rhs = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.strict.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
group.lhs = partable[partable$plabel == uniscore[i, "lhs"], "group"],
group.rhs = partable[partable$plabel == uniscore[i, "rhs"], "group"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
# Longitudinal measurement invariance
} else {
mod.strict.score <- data.frame(label = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.strict.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
}
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Residual Correlation Matrix ####
mod.config.resid <- mod.metric.resid <- mod.scalar.resid <- mod.strict.resid <- NULL
if (isTRUE("resid" %in% print)) {
#### Configural invariance model
mod.config.resid <- tryCatch(lavaan::lavResiduals(mod.config.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.config.resid <- lapply(mod.config.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.config.resid <- rbind(mod.config.resid$cov, mean = mod.config.resid$mean)
}
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric.resid <- tryCatch(lavaan::lavResiduals(mod.metric.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.metric.resid <- lapply(mod.metric.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.metric.resid <- rbind(mod.metric.resid$cov, mean = mod.metric.resid$mean)
}
}
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
mod.scalar.resid <- tryCatch(lavaan::lavResiduals(mod.scalar.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.scalar.resid <- lapply(mod.scalar.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.scalar.resid <- rbind(mod.scalar.resid$cov, mean = mod.scalar.resid$mean)
}
}
#### Strict invariance model
if (isTRUE(invar == "strict")) {
mod.strict.resid <- tryCatch(lavaan::lavResiduals(mod.strict.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.strict.resid <- lapply(mod.strict.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.strict.resid <- rbind(mod.strict.resid$cov, mean = mod.strict.resid$mean)
}
}
}
#_____________________________________________________________________________
#
# Return object --------------------------------------------------------------
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## lavaan summary ####
#...................
### Cluster
cluster.unique <- 1
if (isTRUE(!is.null(cluster))) {
#### Between-group measurement invariance
if (isTRUE(!long)) {
# Number of clusters
cluster.unique <- tapply(x$.cluster, x$.group, function(y) length(unique(na.omit(y))))
#### Longitudinal measurement invariance
} else {
# Number of clusters
cluster.unique <- length(unique(na.omit(x$.cluster)))
}
}
lavaan.summary <- data.frame(### First column
c(paste("lavaan", lavaan::lavInspect(mod.config.fit, what = "version")), "",
"Estimator", "Optimization Method", "",
"Test Statistic", "Standard Errors", "Missing Data", "",
"Indicators", "Identification", "", "",
"Number of Model Parameters", "Number of Equality Constraints", "", "",
if (isTRUE(!long)) { "Total Number of Observations" } else { "Number of Observations" }, "Number of Observations per Group", if (isTRUE(lavaan::lavInspect(mod.config.fit, what = "ngroups") == 1L)) { "1" } else { lavaan::lavInspect(mod.config.fit, what = "group.label") },
"Number of Clusters", if (isTRUE(!is.null(cluster) && !is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }),
### Second column
c("", "",
# Estimator
estimator,
# Optimization method
toupper(lavaan::lavTech(mod.config.fit, what = "options")$optim.method), "",
# Test statistic
switch(lavaan::lavTech(mod.config.fit, what = "options")$test[1L],
"standard" = "Conventional",
"satorra.bentler" = "Satorra-Bentler",
"scaled.shifted" = "Scale-Shifted",
"mean.var.adjusted" = "Satterthwaite",
"yuan.bentler.mplus" = "Yuan-Bentler"),
# Standard errors
switch(lavaan::lavTech(mod.config.fit, what = "options")$se,
"standard" = "Conventional",
"robust.sem" = "Conventional Robust",
"robust.huber.white" = "Huber-White",
"robust.cluster" = "Cluster-Robust H-W",
"robust.cluster.sem" = "Cluster-Robust Conven",
"two.stage" = "Two-Stage",
"robust.two.stage" = "Robust Two-Stage"),
# Missing data
ifelse(isTRUE(complete), "None",
switch(missing,
"listwise" = "Listwise Deletion",
"pairwise" = "Pairwise Deletion",
"fiml" = "FIML",
"two.stage" = "Two-Stage",
"robust.two.stage" = "Robust Two-Stage",
"doubly.robust" = "Doubly-Robust")), "",
# Indicators
ifelse(isTRUE(!ordered), "Continuous", "Ordered-Categorical"),
# Identification
switch(ident, "marker" = "Marker Variable", "var" = "Factor Variance", "effect" = "Effects Coding"), "", "Config",
# Number of model parameters
max(lavaan::parTable(mod.config.fit)$free),
# Number of equality constraints
sum(lavaan::parTable(mod.config.fit)$op == "=="), "", "Used",
# Total number of observations
sum(lavaan::lavInspect(mod.config.fit, what = "nobs")), "",
# Number of observations per group
lavaan::lavInspect(mod.config.fit, what = "nobs"), if (isTRUE(!is.null(cluster) && !is.null(group))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { cluster.unique } else { "1" }),
### Third column
c(rep("", times = 12L), "Metric",
# Number of model parameters
if (isTRUE(!is.null(mod.metric.fit))) { c(max(lavaan::parTable(mod.metric.fit)$free), sum(lavaan::parTable(mod.metric.fit)$op == "==")) } else { c("", "") }, "", "Total",
# Total number of observations
sum(lavaan::lavInspect(mod.config.fit, what = "norig")), "",
# Number of observations per group
lavaan::lavInspect(mod.config.fit, what = "norig"), if (isTRUE(!is.null(group) && !is.null(cluster))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { rep("", times = length(cluster.unique)) } else { "" }),
### Fourth column
c(rep("", times = 12L), "Scalar",
# Number of model parameters
if (isTRUE(!is.null(mod.scalar.fit))) { c(max(lavaan::parTable(mod.scalar.fit)$free), sum(lavaan::parTable(mod.scalar.fit)$op == "==")) } else { c("", "") }, "", "",
# Number of observations used
"", "", rep("", times = length(lavaan::lavInspect(mod.config.fit, what = "nobs"))), if (isTRUE(!is.null(group) && !is.null(cluster))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { rep("", times = length(cluster.unique)) } else { "" }),
### Fifth column
c(rep("", times = 12L), "Strict",
# Number of model parameters
if (isTRUE(!is.null(mod.strict.fit))) { c(max(lavaan::parTable(mod.strict.fit)$free), sum(lavaan::parTable(mod.strict.fit)$op == "==")) } else { c("", "") }, "", "",
# Number of observations used
"", "", rep("", times = length(lavaan::lavInspect(mod.config.fit, what = "nobs"))), if (isTRUE(!is.null(group) && !is.null(cluster))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { rep("", times = length(cluster.unique)) } else { "" }), fix.empty.names = FALSE)
#### Configural invariance model
if (isTRUE(invar == "config")) { lavaan.summary <- lavaan.summary[, c(1L:3L)]; lavaan.summary[c(13L:15L), 3L] <- "" }
#### Metric invariance model
if (isTRUE(invar == "metric")) { lavaan.summary <- lavaan.summary[, c(1L:3L)] }
#### Scalar invariance model
if (isTRUE(invar == "scalar")) { lavaan.summary <- lavaan.summary[, c(1L:4L)] }
#...................
### No grouping variable
if (isTRUE(is.null(group))) { lavaan.summary <- lavaan.summary[-c(19L:20L), ] }
#...................
### No cluster variable
if (isTRUE(is.null(cluster))) { lavaan.summary <- lavaan.summary[-c(which(lavaan.summary[, 1L] %in% c("Number of Clusters")):nrow(lavaan.summary)), ] }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Extract and Combine Model Fit Indices ####
#...................
### Configural invariance model ####
#### Standard fit indices
fit.stand <- data.frame(### Fist column
c("Chi-Square Test of Model Fit", "Test statistic", if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }, "Degrees of freedom", "P-value", "",
"Incremental Fit Indices", "CFI", "TLI", "",
"Absolute Fit Indices", "RMSEA", "90 Percent CI - lower", "90 Percent CI - upper", "P-value RMSEA <= 0.05", "", "SRMR", "",
"Information Criteria", "Akaike (AIC)", "Bayesian (BIC)", "Sample-Size Adjusted BIC"),
### Second column
config = c(NA, lav.fit.config["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "test")$standard$stat.group }, lav.fit.config[c("df", "pvalue")], NA,
NA, lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.config[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(### Fist column
c("Chi-Square Test of Model Fit", "Test statistic", if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }, "Degrees of freedom", "P-value", "Scaling Correction Factor", "",
"Incremental Fit Indices", "CFI", "TLI", "",
"Absolute Fit Indices", "RMSEA", "90 Percent CI - lower", "90 Percent CI - upper", "P-value RMSEA <= 0.05", "", "SRMR", "",
"Information Criteria", "Akaike (AIC)", "Bayesian (BIC)", "Sample-Size Adjusted BIC"),
### Second column
config = c(NA, lav.fit.config["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.config[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.config[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(### Fist column
c("Chi-Square Test of Model Fit", "Test statistic", if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }, "Degrees of freedom", "P-value", "Scaling Correction Factor", "",
"Incremental Fit Indices", "CFI", "TLI", "",
"Absolute Fit Indices", "RMSEA", "90 Percent CI - lower", "90 Percent CI - upper", "P-value RMSEA <= 0.05", "", "SRMR", "",
"Information Criteria", "Akaike (AIC)", "Bayesian (BIC)", "Sample-Size Adjusted BIC"),
### Second column
config = c(NA, lav.fit.config["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.config[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.config[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#...................
### Metric invariance model ####
switch (invar, metric = {
#### Standard fit indices
fit.stand <- data.frame(fit.stand,
### Third column
metric = c(NA, lav.fit.metric["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.metric.fit, what = "test")$standard$stat.group }, lav.fit.metric[c("df", "pvalue")], NA,
NA, lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.metric[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.metric[c("cfi", "tli")] - lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.metric["rmsea"] - lav.fit.config["rmsea"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(fit.scaled,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")] - lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric["rmsea.scaled"] - lav.fit.config["rmsea.scaled"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(fit.robust,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")] - lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric["rmsea.robust"] - lav.fit.config["rmsea.robust"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#...................
### Scalar invariance model ####
}, scalar = {
fit.stand <- data.frame(fit.stand,
### Third column
metric = c(NA, lav.fit.metric["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.metric.fit, what = "test")$standard$stat.group }, lav.fit.metric[c("df", "pvalue")], NA,
NA, lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.metric[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.scalar.fit, what = "test")$standard$stat.group }, lav.fit.scalar[c("df", "pvalue")], NA,
NA, lav.fit.scalar[c("cfi", "tli")], NA,
NA, lav.fit.scalar[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.metric[c("cfi", "tli")] - lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.metric["rmsea"] - lav.fit.config["rmsea"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Sixth column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.scalar[c("cfi", "tli")] - lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.scalar["rmsea"] - lav.fit.metric["rmsea"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(fit.scaled,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")] - lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric["rmsea.scaled"] - lav.fit.config["rmsea.scaled"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Sixth column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")] - lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar["rmsea.scaled"] - lav.fit.metric["rmsea.scaled"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(fit.robust,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")] - lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric["rmsea.robust"] - lav.fit.config["rmsea.robust"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Sixth column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")] - lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar["rmsea.robust"] - lav.fit.metric["rmsea.robust"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#...................
### Strict invariance model ####
}, strict = {
#### Standard fit indices
fit.stand <- data.frame(fit.stand,
### Third column
metric = c(NA, lav.fit.metric["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.metric.fit, what = "test")$standard$stat.group }, lav.fit.metric[c("df", "pvalue")], NA,
NA, lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.metric[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.scalar.fit, what = "test")$standard$stat.group }, lav.fit.scalar[c("df", "pvalue")], NA,
NA, lav.fit.scalar[c("cfi", "tli")], NA,
NA, lav.fit.scalar[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
strict = c(NA, lav.fit.strict["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.strict.fit, what = "test")$standard$stat.group }, lav.fit.strict[c("df", "pvalue")], NA,
NA, lav.fit.strict[c("cfi", "tli")], NA,
NA, lav.fit.strict[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.strict["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")]),
### Sixth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.metric[c("cfi", "tli")] - lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.metric["rmsea"] - lav.fit.config["rmsea"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Seventh column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.scalar[c("cfi", "tli")] - lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.scalar["rmsea"] - lav.fit.metric["rmsea"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]),
### Eight column
dstrict = c(NA, unlist(chidiff.sca.str[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.sca.str[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.strict[c("cfi", "tli")] - lav.fit.scalar[c("cfi", "tli")], NA,
NA, lav.fit.strict["rmsea"] - lav.fit.scalar["rmsea"], NA, NA, NA, NA, lav.fit.strict["srmr_bentler"] - lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")] - lav.fit.scalar[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(fit.scaled,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
strict = c(NA, lav.fit.strict["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.strict[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.strict[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.strict[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.strict["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")]),
### Sixth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")] - lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric["rmsea.scaled"] - lav.fit.config["rmsea.scaled"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Seventh column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")] - lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar["rmsea.scaled"] - lav.fit.metric["rmsea.scaled"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]),
### Eight column
dstrict = c(NA, unlist(chidiff.sca.str[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.sca.str[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.strict[c("cfi.scaled", "tli.scaled")] - lav.fit.scalar[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.strict["rmsea.scaled"] - lav.fit.scalar["rmsea.scaled"], NA, NA, NA, NA, lav.fit.strict["srmr_bentler"] - lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")] - lav.fit.scalar[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(fit.robust,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
strict = c(NA, lav.fit.strict["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.strict[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.strict[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.strict[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.strict["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")]),
### Sixth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")] - lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric["rmsea.robust"] - lav.fit.config["rmsea.robust"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Seventh column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")] - lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar["rmsea.robust"] - lav.fit.metric["rmsea.robust"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]),
### Eight column
dstrict = c(NA, unlist(chidiff.sca.str[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.sca.str[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.strict[c("cfi.robust", "tli.robust")] - lav.fit.scalar[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.strict["rmsea.robust"] - lav.fit.scalar["rmsea.robust"], NA, NA, NA, NA, lav.fit.strict["srmr_bentler"] - lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")] - lav.fit.scalar[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
})
# Remove scaled / robust fit indices and information criteria
if (isTRUE(estimator %in% c("ML", "MLF", "GLS", "WLS", "DWLS", "ULS", "PML"))) {
fit.scaled <- NULL
fit.robust <- NULL
if (isTRUE(estimator %in% c("GLS", "WLS", "DWLS", "ULS", "PML"))) {
fit.stand <- fit.stand[-c((which(fit.stand[, 1L] == "Information Criteria") - 1L):nrow(fit.stand)), ]
}
}
# Remove information criteria
if (isTRUE(estimator %in% c("DLS", "WLSM", "WLSMV", "ULSM", "ULSMV"))) {
fit.stand <- fit.stand[-c((which(fit.stand[, 1L] == "Information Criteria") - 1L):nrow(fit.stand)), ]
fit.scaled <- fit.scaled[-c((which(fit.scaled[, 1L] == "Information Criteria") - 1L):nrow(fit.scaled)), ]
fit.robust <- fit.robust[-c((which(fit.robust[, 1L] == "Information Criteria") - 1L):nrow(fit.robust)), ]
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Parameter estimates ####
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Function for Parameter Estimates ####
model.fit.param <- function(model.param, long = long) {
# Latent variables
print.latent <- model.param[which(model.param$op == "=~"), ]
# Latent variable covariances
print.lv.cov <- model.param[which(model.param$op == "~~" & (model.param$lhs != model.param$rhs) & (model.param$lhs %in% print.latent$lhs) & (model.param$rhs %in% print.latent$lhs)), ]
# Residual covariances
print.res.cov <- model.param[which(model.param$op == "~~" & (model.param$lhs != model.param$rhs) & (!model.param$lhs %in% print.latent$lhs) & (!model.param$rhs %in% print.latent$lhs)), ]
# Latent mean
print.mean <- model.param[which(model.param$op == "~1" & model.param$lhs %in% print.latent$lhs), ]
# Latent variance
print.var <- model.param[which(model.param$op == "~~" & (model.param$lhs %in% print.latent$lhs) & (model.param$lhs == model.param$rhs)), ]
#if (isTRUE(!is.null(model))) { print.var <- print.var[match(names(model), print.var$lhs), ] }
# Intercepts
print.interc <- model.param[which(model.param$op == "~1" & !model.param$lhs %in% print.latent$lhs), ]
# Thresholds
print.thres <- model.param[which(model.param$op == "|"), ]
# Scales
print.scale <- model.param[which(model.param$op == "~*~"), ]
# Residual variance
print.resid <- model.param[which(model.param$op == "~~" & (model.param$lhs == model.param$rhs) & (!model.param$lhs %in% print.latent$lhs) & (!model.param$rhs %in% print.latent$lhs)), ]
# Model parameters
model.param <- rbind(data.frame(param = "latent variable", print.latent),
if (nrow(print.lv.cov) > 0L) { data.frame(param = "latent variable covariance", print.lv.cov) } else { NULL },
if (nrow(print.res.cov) > 0L) { data.frame(param = "residual covariance", print.res.cov) } else { NULL },
if (nrow(print.mean) > 0L) { data.frame(param = "latent mean", print.mean) } else { NULL },
if (nrow(print.var) > 0L) { data.frame(param = "latent variance", print.var) } else { NULL },
if (nrow(print.interc) > 0L) { data.frame(param = "intercept", print.interc) } else { NULL },
if (nrow(print.thres) > 0L) { data.frame(param = "threshold", print.thres) } else { NULL },
if (nrow(print.scale) > 0L) { data.frame(param = "scale", print.scale) } else { NULL },
if (nrow(print.resid) > 0L) { data.frame(param = "residual variance", print.resid) } else { NULL })
#...................
### Add labels ####
# Latent mean, intercept, and threshold
model.param[model.param$param %in% c("latent mean", "intercept"), "rhs"] <- model.param[model.param$param %in% c("latent mean", "intercept"), "lhs"]
if (isTRUE(any(model.param$param == "threshold"))) {
model.param[model.param$param == "threshold", "rhs"] <- apply(model.param[model.param$param == "threshold", c("lhs", "rhs")], 1L, paste, collapse = "|")
}
#### Latent variables
##### Between-group measurement invariance
if (isTRUE(!long)) {
print.lv <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable"), "lhs"])) {
# Loop across groups
for (j in unique(model.param$group)) {
print.lv <- rbind(print.lv,
data.frame(param = "latent variable", group = j, lhs = i, op = "", rhs = paste(i, "=~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable" & model.param$lhs == i & model.param$group == j), ])
}
}
##### Longitudinal measurement invariance
} else {
print.lv <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable"), "lhs"])) {
print.lv <- rbind(print.lv,
data.frame(param = "latent variable", lhs = i, op = "", rhs = paste(i, "=~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable" & model.param$lhs == i), ])
}
}
#### Latent variable covariances
##### Between-group measurement invariance
if (isTRUE(!long)) {
print.lv.cov <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable covariance"), "lhs"])) {
# Loop across groups
for (j in unique(model.param$group)) {
print.lv.cov <- rbind(print.lv.cov,
data.frame(param = "latent variable covariance", group = j, lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable covariance" & model.param$lhs == i & model.param$group == j), ])
}
}
##### Longitudinal measurement invariance
} else {
print.lv.cov <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable covariance"), "lhs"])) {
print.lv.cov <- rbind(print.lv.cov,
data.frame(param = "latent variable covariance", lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable covariance" & model.param$lhs == i), ])
}
}
#### Residual covariances
##### Between-group measurement invariance
if (isTRUE(!long)) {
print.res.cov <- NULL
for (i in unique(model.param[which(model.param$param == "residual covariance"), "lhs"])) {
# Loop across groups
for (j in unique(model.param$group)) {
print.res.cov <- rbind(print.res.cov,
data.frame(param = "residual covariance", group = j, lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "residual covariance" & model.param$lhs == i & model.param$group == j), ])
}
}
##### Longitudinal measurement invariance
} else {
print.res.cov <- NULL
for (i in unique(model.param[which(model.param$param == "residual covariance"), "lhs"])) {
print.res.cov <- rbind(print.res.cov,
data.frame(param = "residual covariance", lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "residual covariance" & model.param$lhs == i), ])
}
}
#...................
### Merge parameter tables ####
model.param <- data.frame(rbind(print.lv, print.lv.cov, print.res.cov,
model.param[which(!model.param$param %in% c("latent variable", "latent variable covariance", "residual covariance")), ]), row.names = NULL)
# Sort by group
if (isTRUE(!long)) { model.param <- data.frame(misty::df.sort(model.param, group), row.names = NULL) }
#...................
### Labels in parentheses ####
model.param$label <- sapply(model.param$label, function(y) ifelse(y != "", paste0("(", y, ")"), y))
#...................
### Return object ####
return(model.param)
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Parameter Estimates Tables ####
param.metric <- param.scalar <- param.strict <- NULL
### Configural invariance model
param.config <- model.fit.param(mod.config.param, long = long)
### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { param.metric <- model.fit.param(mod.metric.param, long = long) }
### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { param.scalar <- model.fit.param(mod.scalar.param, long = long) }
### Strict invariance model
if (isTRUE(invar == "strict")) { param.strict <- model.fit.param(mod.strict.param, long = long) }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Return object ####
object <- list(call = match.call(),
type = "item.invar",
data = x,
args = list(model = model, rescov = rescov, rescov.long = rescov.long,
long = long, cluster = cluster, invar = invar, partial = partial,
ident = ident, ordered = ordered, estimator = estimator,
missing = missing, null.model = null.model, print = print, print.fit = print.fit,
mod.minval = mod.minval, resid.minval = resid.minval,
digits = digits, p.digits = p.digits, as.na = as.na, write = write,
check = check, output = output),
model = list(config = mod.config, metric = mod.metric, scalar = mod.scalar, strict = mod.strict),
model.fit = list(config = mod.config.fit, metric = mod.metric.fit, scalar = mod.scalar.fit, strict = mod.strict.fit),
check = list(config = list(vcov = mod.config.fit.check["check.vcov"], theta = mod.config.fit.check["check.theta"], cov.lv = mod.config.fit.check["check.cov.lv"]),
metric = list(vcov = mod.metric.fit.check["check.vcov"], theta = mod.metric.fit.check["check.theta"], cov.lv = mod.metric.fit.check["check.cov.lv"]),
scalar = list(vcov = mod.scalar.fit.check["check.vcov"], theta = mod.scalar.fit.check["check.theta"], cov.lv = mod.scalar.fit.check["check.cov.lv"]),
strict = list(vcov = mod.strict.fit.check["check.vcov"], theta = mod.strict.fit.check["check.theta"], cov.lv = mod.strict.fit.check["check.cov.lv"])),
result = list(summary = unname(lavaan.summary), coverage = coverage,
descript = itemstat, itemfreq = itemfreq,
fit = list(stand = fit.stand, scaled = fit.scaled, robust = fit.robust),
param = list(config = param.config, metric = param.metric, scalar = param.scalar, strict = param.strict),
modind = list(config = mod.config.modind, metric = mod.metric.modind, scalar = mod.scalar.modind, strict = mod.strict.modind),
score = list(metric = mod.metric.score, scalar = mod.scalar.score, strict = mod.strict.score),
resid = list(config = mod.config.resid, metric = mod.metric.resid, scalar = mod.scalar.resid, strict = mod.strict.resid)))
class(object) <- "misty.object"
#_____________________________________________________________________________
#
# Write Results --------------------------------------------------------------
if (isTRUE(!is.null(write))) { misty::write.result(object, file = write) }
#_____________________________________________________________________________
#
# Output ---------------------------------------------------------------------
if (isTRUE(output)) { print(object, check = FALSE) }
return(invisible(object))
}
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Defines functions item.invar
Documented in item.invar
#' Between-Group and Longitudinal Measurement Invariance Evaluation
#'
#' This function is a wrapper function for evaluating configural, metric, scalar,
#' and strict between-group or longitudinal (partial) measurement invariance using
#' confirmatory factor analysis with continuous indicators by calling the \code{cfa}
#' function in the R package \pkg{lavaan}. By default, the function evaluates
#' configural, metric, and scalar measurement invariance by providing a table
#' with model fit information (i.e., chi-square test, fit indices based on a proper
#' null model, and information criteria) and model comparison (i.e., chi-square
#' difference test, change in fit indices, and change in information criteria).
#' Additionally, variance-covariance coverage of the data, descriptive statistics,
#' parameter estimates, modification indices, and residual correlation matrix can
#' be requested by specifying the argument \code{print}.
#'
#' @param x a matrix or data frame. If \code{model = NULL}, confirmatory
#' factor analysis based on a measurement model with one factor
#' labeled \code{f} comprising all variables in the matrix or
#' data frame specified in \code{x} for evaluating between-group
#' measurement invariance for the grouping variable specified
#' in the argument \code{group} is conducted. Longitudinal
#' measurement invariance evaluation can only be conducted by
#' specifying the model using the argument \code{model}. Note
#' that the cluster variable is excluded from \code{x} when
#' specifying \code{cluster}. If \code{model} is specified,
#' the matrix or data frame needs to contain all variables
#' used in the argument \code{model} and the cluster variable
#' when specifying the name of the cluster variable in the
#' argument \code{cluster}.
#' @param model a character vector specifying a measurement model with one
#' factor, or a list of character vectors for specifying a
#' measurement model with more than one factor for evaluating
#' between-group measurement invariance when \code{long = FALSE}
#' or a list of character vectors for specifying a measurement
#' model with one factor for each time of measurement for
#' evaluating longitudinal measurement invariance when
#' specifying \code{long = TRUE}. For example,
#' \code{model = c("x1", "x2", "x3", "x4")} for specifying a
#' measurement model with one factor labeled \code{f} comprising
#' four indicators, or \code{model = list(factor1 = c("x1", "x2", "x3", "x4"),
#' factor2 = c("x5", "x6", "x7", "x8"))} for specifying a
#' measurement model with two latent factors labeled \code{factor1}
#' and \code{factor2} each comprising four indicators for
#' evaluating between-group measurement invariance, or
#' \code{model = list(time1 = c("ax1", "ax2", "ax3", "ax4"),
#' time2 = c("bx1", "bx2", "bx3", "bx4"),
#' time3 = c("cx1", "cx2", "cx3", "cx4"))} for specifying a
#' longitudinal measurement model with three time points comprising
#' four indicators at each time point. This function cannot
#' evaluate longitudinal measurement invariance for a measurement
#' model with more than one factor. Note that the name of each
#' list element is used to label factors, i.e., all list elements
#' need to be named, otherwise factors are labeled with \code{"f1", "f2", "f3"}
#' when \code{long = FALSE} and with \code{"t1", "t2", "t3"}
#' when \code{long = TRUE} and so on.
#' @param rescov a character vector or a list of character vectors for specifying
#' residual covariancesindiator, e.g., \code{rescov = c("x1", "x2")}
#' for specifying a residual covariance between items \code{x1}
#' and \code{x2}, or \code{rescov = list(c("x1", "x2"), c("x3", "x4"))}
#' for specifying residual covariances between items \code{x1}
#' and \code{x2}, and items \code{x3} and \code{x4}.
#' @param rescov.long logical: if \code{TRUE} (default), residual covariances between
#' parallel indicators are estimated across time when evaluating
#' longitudinal measurement invariance (\code{long = TRUE}),
#' i.e., residual variances of the same indicators that are
#' measured at different time points are correlated across all
#' possible time points. Note that residual covariances should
#' be estimated even if the parameter estimates are statistically
#' not significant since indicator-specific systematic variance
#' is likely to correlate with itself over time (Little, 2013,
#' p. 164).
#' @param group either a character string indicating the variable name of
#' the grouping variable in the matrix or data frame specified
#' in \code{x} or a vector representing the groups
#' for conducting multiple-group analysis to evaluate between-group
#' measurement invariance.
#' @param long logical: if \code{TRUE}, longitudinal measurement invariance
#' evaluation is conducted. The longitudinal measurement model
#' is specified by using the argument \code{model}. Note that
#' this function can only evaluate either between-group or
#' longitudinal measurement invariance, but not both at the
#' same time.
#' @param cluster either a character string indicating the variable name of
#' the cluster variable in the matrix or data frame specified
#' in \code{x} or a vector representing the nested grouping
#' structure (i.e., group or cluster variable) for computing
#' a robust test statistic and cluster-robust standard errors.
#' @param invar a character string indicating the level of measurement
#' invariance to be evaluated, i.e., \code{config} to evaluate
#' configural measurement invariance (i.e., same factor structure
#' across groups or time), \code{metric} to evaluate configural
#' and metric measurement invariance (i.e., equal factor loadings
#' across groups or time), \code{scalar} (default) to evaluate
#' configural, metric and scalar measurement invariance (i.e.,
#' equal intercepts or thresholds across groups or time), and
#' \code{strict} to evaluate configural, metric, scalar, and
#' strict measurement invariance (i.e., equal residual variances
#' across groups or time).
#' @param partial a character string or character vector containing the labels
#' of the parameters which should be free in all groups or across
#' time to specify a partial measurement invariance model. Note
#' that the labels of the parameters need to match the labels
#' shown in the output, i.e., \code{"L"} with a number for factor
#' loadings, \code{"T"} with a number for intercepts, and
#' \code{"E"} with a number for factor residual variances. The
#' number attached to the \code{"L"}, \code{"T"}, or \code{"E"}
#' label corresponds to the number of the indicator in the
#' measurement model (e.g., \code{"T3"} for the intercept of
#' the third indicator). When specifying the model using the
#' argument \code{model}, however, the number for the factor
#' loading is a combination of the number of the factor and
#' the number of the indicator (e.g., \code{"L23"} is the third
#' indicator of the second factor). Note that at least two
#' invariant indicators are needed for a partial measurement
#' invariance model. Otherwise there might be issues with model
#' non-identification.
#' @param ident a character string indicating the method used for identifying
#' and scaling latent variables, i.e., \code{"marker"} for the
#' marker variable method fixing the first factor loading of
#' each latent variable to 1, \code{"var"} (default) for the
#' fixed variance method fixing the variance of each latent
#' variable to 1, or \code{"effect"} for the effects-coding
#' method using equality constraints so that the average of
#' the factor loading for each latent variable equals 1.
#' @param estimator a character string indicating the estimator to be used
#' (see 'Details' in the help page of the \code{item.cfa()}
#' function). By default, \code{"MLR"} is used for CFA models
#' with continuous indicators.
#' @param missing a character string indicating how to deal with missing data,
#' i.e., \code{"listwise"} for listwise deletion, \code{"pairwise"}
#' for pairwise deletion, \code{"fiml"} for full information
#' maximum likelihood method, \code{two.stage} for two-stage
#' maximum likelihood method, \code{robust.two.stage} for robust
#' two-stage maximum likelihood method, and \code{doubly-robust}
#' for doubly-robust method (see 'Details' in the help page
#' of the\code{item.cfa()} function). By default, \code{"fiml"}
#' is used for CFA models with continuous indicators which are
#' estimated by using \code{estimator = "MLR"}. However, argument
#' \code{missing} switches to \code{listwise} when the data
#' set is complete, i.e., it is not possible to use FIML in
#' complete data. Note that the robust CFI, TLI, and RMSEA
#' are different in complete data depending on whether FIML or
#' listwise deletion was specified when estimating the model
#' in lavaan.
#' @param null.model logical: if \code{TRUE} (default), the proper null model
#' for computing incremental fit indices (i.e., CFI and TLI)
#' is used, i.e., means and variances of the indicators are
#' constrained to be equal across group or time in the null
#' model (Little, 2013, p. 112).
#' @param print a character string or character vector indicating which results
#' to show on the console, i.e. \code{"all"} for all results,
#' \code{"summary"} for a summary of the specification of the
#' estimation method and missing data handling in lavaan,
#' \code{"coverage"} for the variance-covariance coverage of
#' the data, \code{"descript"} for descriptive statistics,
#' \code{"fit"} for model fit and model comparison, \code{"est"}
#' for parameter estimates, \code{"modind"} for modification
#' indices, and \code{"resid"} for the residual correlation
#' matrix and standardized residual means. By default, a summary
#' of the specification, model fit, and parameter estimates
#' are printed. Note that parameter estimates, modification
#' indices, and residual correlation matrix is only provided
#' for the model investigating the level of measurement
#' invariance specified in the argument \code{"invar"}.
#' @param print.fit a character string or character vector indicating which
#' version of the CFI, TLI, and RMSEA to show on the console
#' when using a robust estimation method involving a scaling
#' correction factor, i.e., \code{"all"} for all versions of
#' the CFI, TLI, and RMSEA, \code{"standard"} (default when
#' \code{estimator} is one of \code{"ML", "MLF", "GLS", "WLS", "DWLS", "ULS", "PML"})
#' for fit indices without any non-normality correction,
#' \code{"scaled"} for population-corrected robust fit indices
#' with ad hoc non-normality correction, and \code{robust}
#' (default when \code{estimator} is one of \code{"MLM", "MLMV,
#' "MLMVS", "MLR", "WLSM", "WLSMV", "ULSM", "ULSMV", "DLS"})
#' for sample-corrected robust fit indices based on formula
#' provided by Li and Bentler (2006) and Brosseau-Liard and
#' Savalei (2014).
#' @param mod.minval numeric value to filter modification indices and only show
#' modifications with a modification index value equal or higher
#' than this minimum value. By default, modification indices
#' equal or higher 6.63 are printed. Note that a modification
#' index value of 6.63 is equivalent to a significance level
#' of \eqn{\alpha = .01}.
#' @param resid.minval numeric value indicating the minimum absolute residual
#' correlation coefficients and standardized means to highlight
#' in boldface. By default, absolute residual correlation
#' coefficients and standardized means equal or higher 0.1
#' are highlighted. Note that highlighting can be disabled by
#' setting the minimum value to 1.
#' @param digits an integer value indicating the number of decimal places
#' to be used for displaying results. Note that information
#' criteria and chi-square test statistic are printed with
#' \code{digits} minus 1 decimal places.
#' @param p.digits an integer value indicating the number of decimal places
#' to be used for displaying \emph{p}-values, covariance coverage
#' (i.e., \code{p.digits - 1}), and residual correlation
#' coefficients.
#' @param as.na a numeric vector indicating user-defined missing values, i.e.,
#' these values are converted to \code{NA} before conducting
#' the analysis. Note that \code{as.na()} function is only
#' applied to \code{x} but not to \code{group} or \code{cluster}.
#' @param write a character string for writing the results into a Excel file
#' naming a file with or without file extension '.xlsx', e.g.,
#' \code{"Results.xlsx"} or \code{"Results"}.
#' @param check logical: if \code{TRUE}, argument specification is checked
#' and convergence and model identification checks are conducted
#' for all estimated models.
#' @param output logical: if \code{TRUE}, output is shown.
#'
#' @author
#' Takuya Yanagida \email{takuya.yanagida@@univie.ac.at}
#'
#' @seealso
#' \code{\link{item.cfa}}, \code{\link{multilevel.invar}}, \code{\link{write.result}}
#'
#' @references
#' Brosseau-Liard, P. E., & Savalei, V. (2014) Adjusting incremental fit indices
#' for nonnormality. \emph{Multivariate Behavioral Research, 49}, 460-470.
#' https://doi.org/10.1080/00273171.2014.933697
#'
#' Li, L., & Bentler, P. M. (2006). Robust statistical tests for evaluating the
#' hypothesis of close fit of misspecified mean and covariance structural models.
#' \emph{UCLA Statistics Preprint #506}. University of California.
#'
#' Little, T. D. (2013). \emph{Longitudinal structural equation modeling}. Guilford
#' Press.
#'
#' Rosseel, Y. (2012). lavaan: An R Package for Structural Equation Modeling.
#' \emph{Journal of Statistical Software, 48}, 1-36. https://doi.org/10.18637/jss.v048.i02
#'
#' @return
#' Returns an object of class \code{misty.object}, which is a list with following
#' entries:
#'
#' \item{\code{call}}{function call}
#' \item{\code{type}}{type of analysis}
#' \item{\code{data}}{data frame including all variables used in the analysis, i.e.,
#' indicators for the factor, grouping variable and cluster variable}
#' \item{\code{args}}{specification of function arguments}
#' \item{\code{model}}{list with specified model for the configural, metric, scalar,
#' and strict invariance model}
#' \item{\code{model.fit}}{list with fitted lavaan object of the configural, metric,
#' scalar, and strict invariance model}
#' \item{\code{check}}{list with the results of the convergence and model identification
#' check for the configural, metric, scalar, and strict invariance
#' model}
#' \item{\code{result}}{list with result tables, i.e., \code{summary} for the
#' summary of the specification of the estimation method and
#' missing data handling in lavaan, \code{coverage} for the
#' variance-covariance coverage of the data, \code{descript}
#' for descriptive statistics, \code{fit} for a list with
#' model fit based on standard, scaled, and robust fit indices,
#' \code{est} for a list with parameter estimates for the
#' configural, metric, scalar, and strict invariance model,
#' \code{modind} for the list with modification indices for
#' the configural, metric, scalar, and strict invariance model,
#' \code{score} for the list with result of the score tests
#' for constrained parameters for the configural, metric,
#' scalar, and strict invariance model, and \code{resid} for
#' the list with residual correlation matrices and standardized
#' residual means for the configural, metric, scalar, and
#' strict invariance model}
#'
#' @note
#' The function uses the functions \code{cfa}, \code{fitmeasures} ,\code{lavInspect},
#' \code{lavTech}, \code{lavTestLRT}, \code{lavTestScore}, \code{modindices},
#' \code{parameterEstimates}, \code{parTable}, and \code{standardizedsolution}
#' provided in the R package \pkg{lavaan} by Yves Rosseel (2012).
#'
#' @export
#'
#' @examples
#' \dontrun{
#' # Load data set "HolzingerSwineford1939" in the lavaan package
#' data("HolzingerSwineford1939", package = "lavaan")
#'
#' #------------------------------------------------
#' # Between-Group Measurement Invariance Evaluation
#'
#' #..................
#' # Measurement model with one factor
#'
#' # Specification of the grouping variable in 'x'
#' item.invar(HolzingerSwineford1939[, c("x1", "x2", "x3", "x4", "sex")], group = "sex")
#'
#' # Specification of the grouping variable in 'group'
#' item.invar(HolzingerSwineford1939[, c("x1", "x2", "x3", "x4")],
#' group = HolzingerSwineford1939$sex)
#'
#' # Alternative specification using the argument 'model'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"), group = "sex")
#'
#' #..................
#' # Measurement model with two factors
#'
#' item.invar(HolzingerSwineford1939,
#' model = list(c("x1", "x2", "x3", "x4"),
#' c("x5", "x6", "x7", "x8")), group = "sex")
#'
#' #..................
#' # Measurement model with two factors
#'
#' # Evaluate configural, metric, scalar, and strict measurement invariance
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", invar = "strict")
#'
#' #..................
#' # Partial measurement invariance
#'
#' # Free second factor loading (L2) and third intercept (T3)
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", partial = c("L2", "T3"), print = c("fit", "est"))
#'
#' #..................
#' # Residual covariances
#'
#' # One residual covariance
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' rescov = c("x3", "x4"), group = "sex")
#'
#' # Two residual covariances
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' rescov = list(c("x1", "x2"), c("x3", "x4")), group = "sex")
#'
#' #..................
#' # Scaled test statistic and cluster-robust standard errors
#'
#' # Specify cluster variable using a variable name in 'x'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", cluster = "agemo")
#'
#' # Specify vector of the cluster variable in the argument 'cluster'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", cluster = HolzingerSwineford1939$agemo)
#'
#' #..................
#' # Default Null model
#'
#' # Specify default null model for computing incremental fit indices
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", null.model = FALSE)
#'
#' #..................
#' # Print argument
#'
#' # Request all results
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = "all")
#'
#' # Request fit indices with ad hoc non-normality correction
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print.fit = "scaled")
#'
#' # Request modification indices with value equal or higher than 10
#' # and highlight residual correlations equal or higher than 0.3
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = c("modind", "resid"),
#' mod.minval = 10, resid.minval = 0.3)
#'
#' #..................
#' # Model syntax and lavaan summary of the estimated model
#'
#' mod <- item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", output = FALSE)
#'
#' # lavaan model syntax scalar invariance model
#' cat(mod$model$scalar)
#'
#' # lavaan summary of the scalar invariance model
#' lavaan::summary(mod$model.fit$scalar, standardized = TRUE, fit.measures = TRUE)
#'
#' #------------------------------------------------
#' # Longitudinal Measurement Invariance Evaluation
#'
#' # Two time points with three indicators at each time point
#' item.invar(HolzingerSwineford1939,
#' model = list(c("x1", "x2", "x3"),
#' c("x5", "x6", "x7")), long = TRUE)
#'
#' #------------------------------------------------
#' # Write Results into a Excel file
#'
#' item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = "all", write = "Invariance.xlsx", output = FALSE)
#'
#' result <- item.invar(HolzingerSwineford1939, model = c("x1", "x2", "x3", "x4"),
#' group = "sex", print = "all", output = FALSE)
#' write.result(result, "Invariance.xlsx")
#' }
item.invar <- function(x, model = NULL, rescov = NULL, rescov.long = TRUE, group = NULL,
long = FALSE, cluster = NULL, invar = c("config", "metric", "scalar", "strict"),
partial = NULL, ident = c("marker", "var", "effect"),
estimator = c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR",
"GLS", "WLS", "DWLS", "WLSM", "WLSMV",
"ULS", "ULSM", "ULSMV", "DLS", "PML"),
missing = c("listwise", "pairwise", "fiml", "two.stage", "robust.two.stage", "doubly.robust"),
null.model = TRUE, print = c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid"),
print.fit = c("all", "standard", "scaled", "robust"), mod.minval = 6.63, resid.minval = 0.1,
digits = 3, p.digits = 3, as.na = NULL, write = NULL, check = TRUE, output = TRUE) {
#_____________________________________________________________________________
#
# Initial Check --------------------------------------------------------------
# Check if input 'x' is missing or NULL
if (isTRUE(missing(x) || is.null(x))) { stop("Please specify a matrix or data frame for the argument 'x'.", call. = FALSE) }
# Check if input 'x' is a matrix or a data frame
if (isTRUE(!is.matrix(x) && !is.data.frame(x))) { stop("Please specify a matrix or a data frame for the argument 'x'.", call. = FALSE) }
# Check if input 'model' is a character vector or list of character vectors
if (isTRUE(!is.null(model) && !all(sapply(model, is.character)))) { stop("Please specify a character vector or list of character vectors for the argument 'model'.", call. = FALSE) }
# Check if variables in input 'model' are available in input 'x'
if (isTRUE(!is.null(model) && any(!unlist(model) %in% colnames(x)))) { stop(paste0("Items specified in the argument 'model' were not found in 'x': ", paste(unique(unlist(model))[!unique(unlist(model)) %in% colnames(x)], collapse = ", ")), call. = FALSE) }
# Check if 'group' or 'long' is specified
if (isTRUE((is.null(group) && !long) || (!is.null(group) && long))) { stop("Please specify the argument 'group' to evaluate between-group measurement invariance or the argument 'long' to evaluate longitudinal measurement invariance.", call. = FALSE) }
# Check if 'model' is specified when evaluating longitudinal measurement invariance
if (isTRUE((long && is.null(model)) || (long && !is.list(model)))) { stop("Please specify a list of character vectors for the argument 'model' to evaluate longitudinal measurement invariance.", call. = FALSE) }
#_____________________________________________________________________________
#
# Input Check ----------------------------------------------------------------
# Check input 'check'
if (isTRUE(!is.logical(check))) { stop("Please specify TRUE or FALSE for the argument 'check'.", call. = FALSE) }
if (isTRUE(check)) {
## R package lavaan ##
if (isTRUE(!nzchar(system.file(package = "lavaan")))) { stop("Package \"lavaan\" is needed for this function, please install the package.", call. = FALSE) }
## Check input 'x' ##
if (isTRUE(is.null(model))) {
# No cluster or grouping variable in 'x'
if (isTRUE((is.null(cluster) || length(cluster) != 1L) && (is.null(group) || length(group) != 1L))) {
if (isTRUE(ncol(data.frame(x)) < 3L)) { stop("Please specify at least three indicators for the measurement model in 'x'.", call. = FALSE) }
# Cluster or grouping variable in 'x'
} else if (isTRUE( length(cluster) == 1L || length(group) == 1L)) {
if (isTRUE(ncol(data.frame(x)[, !colnames(data.frame(x)) %in% c(cluster, group), drop = FALSE]) < 3L)) { stop("Please specify at least three indicators for the measurement model in 'x'.", call. = FALSE) }
}
## Check input 'model' ##
} else {
# Character vector
if (isTRUE(!is.list(model))) {
if (isTRUE(length(unique(model)) < 3L)) { stop("Please specify at least three indicators for the measurement model.", call. = FALSE) }
# List
} else {
# One-factor model
if (isTRUE(length(model) == 1L && length(unique(unlist(model))) < 3L)) {
stop("Please specify at least three indicators for the measurement model.", call. = FALSE)
# Multiple-factor model
} else if (isTRUE(any(sapply(model, function(y) length(y) < 3L)))) {
stop("Please specify at least three indicators for each factor of the measurement model.", call. = FALSE)
}
}
}
## Check input 'rescov' ##
if (isTRUE(!is.null(rescov))) {
# Two variables for each residual covariance
if (isTRUE(is.list(rescov)) && any(sapply(rescov, length) != 2L)) {
stop("Please specify a list of character vectors for the argument 'rescov', where each element has two variable names", call. = FALSE)
} else {
if (isTRUE(length(rescov) != 2L)) {
stop("Please specify a character vector with two variable names for the argument 'rescov'", call. = FALSE)
}
}
# Model specification without 'model'
if (isTRUE(is.null(model))) {
rescov.items <- !unique(unlist(rescov)) %in% colnames(x)
if (isTRUE(any(rescov.items))) {
stop(paste0("Items specified in the argument 'rescov' were not found in 'x': ", paste(unique(unlist(rescov))[rescov.items], collapse = ", ")), call. = FALSE)
}
# Model specification with 'model'
} else {
rescov.items <- !unique(unlist(rescov)) %in% unique(unlist(model))
if (isTRUE(any(rescov.items))) {
stop(paste0("Items specified in the argument 'rescov' were not found in 'model': ", paste(unique(unlist(rescov))[rescov.items], collapse = ", ")), call. = FALSE)
}
}
}
## Check input 'rescov.long' ##
if (isTRUE(!is.logical(rescov.long))) { stop("Please specify TRUE or FALSE for the argument 'rescov.long'.", call. = FALSE) }
## Check input 'group' ##
if (isTRUE(!is.null(group))) {
# Name of the grouping variable in 'x'
if (isTRUE(length(group) == 1L)) {
# One grouping variable
if (isTRUE(!is.character(group))) { stop("Please specify a character string for the name of the grouping variable in 'x'", call. = FALSE) }
# Grouping variable in 'x'
if (isTRUE(!group %in% colnames(x))) { stop(paste0("Grouping variable \"", group, "\" specified in 'group' was not found in 'x'"), call. = FALSE) }
# Group variable
} else {
# Length of grouping variable
if (isTRUE(nrow(x) != length(group))) { stop("The grouping variable does not match with the number of rows in 'x'.",call. = FALSE) }
# Number of groups
if (isTRUE(length(unique(na.omit(group))) == 1L)) { stop("There is only one group represented in the grouping variable 'group'.", call. = FALSE) }
}
}
## Check input 'long' ##
if (isTRUE(!is.logical(long))) { stop("Please specify TRUE or FALSE for the argument 'long'.", call. = FALSE) }
if (isTRUE(long && !is.null(group))) { stop("Please specify the arguments for evaluating either between-group or longitudinal measurement invariance.", call. = FALSE) }
## Longitudinal measurement invariance ##
if (isTRUE(long)) {
# Model argument is NULL or not a list
if (isTRUE(is.null(model) || !is.list(model))) { stop("Please specify the measurement model for evaluating longitudinal measurement invariance using the argument 'model'.", call. = FALSE) }
# Not the same number of item across time
if (isTRUE(length(unique(sapply(model, length))) != 1L)) { stop("Please specify the same number of items measured at each time point in the argument 'model'.", call. = FALSE) }
}
## Check input 'cluster' ##
if (isTRUE(!is.null(cluster))) {
# Name of the cluster variable in 'x'
if (isTRUE(length(cluster) == 1L)) {
# One cluster variable
if (isTRUE(!is.character(cluster))) { stop("Please specify a character string for the name of the cluster variable in 'x'", call. = FALSE) }
# Cluster variable in 'x'
if (isTRUE(!cluster %in% colnames(x))) { stop(paste0("Cluster variable \"", cluster, "\" specified in 'cluster' was not found in 'x'"), call. = FALSE) }
# Cluster variable
} else {
# Length of cluster variable
if (isTRUE(nrow(x) != length(cluster))) { stop("The cluster variable does not match with the number of rows in 'x'.",call. = FALSE) }
# Number of groups
if (isTRUE(length(unique(na.omit(cluster))) == 1L)) { stop("There is only one group represented in the cluster variable 'cluster'.", call. = FALSE) }
}
}
## Check input 'invar' ##
if (isTRUE(!all(invar %in% c("config", "metric", "scalar", "strict")))) { stop("Character string in the argument 'invar' does not match with \"config\", \"metric\", \"scalar\", or \"scalar\".", call. = FALSE) }
## Check input 'partial' ##
if (isTRUE(any(!sapply(partial, function(y) sapply(strsplit(y, split = ""), function(z) any(c("L", "T", "E") %in% z)))))) { warning("Character string(s) in the argument 'partial' need to match the labels of the parameters starting with \"L\", \"T\", or \"E\".", call. = FALSE) }
## Check input 'ident' ##
if (isTRUE(!all(ident %in% c("marker", "var", "effect")))) { stop("Character string in the argument 'ident' does not match with \"marker\", \"var\", or \"effect\".", call. = FALSE) }
## Check input 'estimator' ##
if (isTRUE(!all(estimator %in% c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML")))) { stop("Character string in the argument 'estimator' does not match with \"ML\", \"MLM\", \"MLMV\", \"MLMVS\", \"MLF\", \"MLR\", \"GLS\", \"WLS\", \"DWLS\", \"WLSM\", \"WLSMV\", \"ULS\", \"ULSM\", \"ULSMV\", \"DLS\", or \"PML\".", call. = FALSE) }
## Check input 'missing' ##
if (isTRUE(!all(missing %in% c("listwise", "pairwise", "fiml", "two.stage", "robust.two.stage", "doubly.robust")))) { stop("Character string in the argument 'missing' does not match with \"listwise\", \"pairwise\", \"fiml\", \"two.stage\", \"robust.two.stage\", or \"doubly.robust\".", call. = FALSE) }
## Check input 'null.model' ##
if (isTRUE(!is.logical(long))) { stop("Please specify TRUE or FALSE for the argument 'null.model'.", call. = FALSE) }
## Check input 'print' ##
if (isTRUE(!all(print %in% c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid")))) { stop("Character strings in the argument 'print' do not all match with \"summary\", \"coverage\", \"descript\", \"fit\", \"est\", \"modind\", or \"resid\".", call. = FALSE) }
## Check input 'print.fit' ##
if (isTRUE(!all(print.fit %in% c("all", "standard", "scaled", "robust")))) { stop("Character strings in the argument 'print.fit' do not all match with \"standard\", \"scaled\", or \"robust\".", call. = FALSE) }
## Check input 'mod.minval' ##
if (isTRUE(mod.minval < 0L)) { stop("Please specify a value greater than or equal 0 for the argument 'mod.minval'.", call. = FALSE) }
## Check input 'resid.minval' ##
if (isTRUE(resid.minval < 0L)) { stop("Please specify a value greater than or equal 0 for the argument 'resid.minval'.", call. = FALSE) }
## Check input 'digits' ##
if (isTRUE(digits %% 1L != 0L || digits < 0L || digits == 0L)) { stop("Specify a positive integer number for the argument 'digits'.", call. = FALSE) }
# Check input 'p.digits'
if (isTRUE(p.digits %% 1L != 0L || p.digits < 0L)) { stop("Specify a positive integer number for the argument 'p.digits'.", call. = FALSE) }
## Check input 'output' ##
if (isTRUE(!is.logical(output))) { stop("Please specify TRUE or FALSE for the argument 'output'.", call. = FALSE) }
}
#_____________________________________________________________________________
#
# Data and Arguments ---------------------------------------------------------
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Manifest Variables ####
#...................
### Model specification with 'x' ####
if (isTRUE(is.null(model))) {
#### No cluster variable
if (isTRUE(is.null(cluster))) {
# Grouping variable by variable name
if (isTRUE(length(group) == 1L)) {
var <- colnames(x)[!colnames(x) %in% group]
# Grouping variable by vector
} else {
var <- colnames(x)
}
#### Cluster variable
} else {
if (isTRUE(length(cluster) == 1L)) {
# Grouping variable by variable name
if (isTRUE(length(group) == 1L)) {
var <- colnames(x)[!colnames(x) %in% c(group, cluster)]
# Grouping variable by vector
} else {
var <- colnames(x)[!colnames(x) %in% cluster]
}
}
}
#...................
### Model specification with 'model' ####
} else {
var <- unique(unlist(model))
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Data Frame with Cluster and Grouping Variable ####
#...................
### No cluster variable ####
if (isTRUE(is.null(cluster))) {
# Grouping variable by variable name
if (isTRUE(!is.null(group) && length(group) == 1L)) {
x <- data.frame(x[, var], .group = x[, group], stringsAsFactors = FALSE)
# Grouping variable by vector
} else if (isTRUE(!is.null(group) && length(group) > 1L)) {
x <- data.frame(x[, var], .group = group, stringsAsFactors = FALSE)
# No grouping variable
} else if (isTRUE(is.null(group))) {
x <- data.frame(x[, var], stringsAsFactors = FALSE)
}
#...................
### Cluster variable ####
} else {
# Cluster variable by variable name
if (isTRUE(length(cluster) == 1L)) {
# Grouping variable by variable name
if (isTRUE(!is.null(group) && length(group) == 1L)) {
x <- data.frame(x[, var], .group = x[, group], .cluster = x[, cluster], stringsAsFactors = FALSE)
# Grouping variable by vector
} else if (isTRUE(!is.null(group) && length(group) > 1L)) {
x <- data.frame(x[, var], .group = group, .cluster = x[, cluster], stringsAsFactors = FALSE)
# No grouping variable
} else if (isTRUE(is.null(group))) {
x <- data.frame(x[, var], .cluster = x[, cluster], stringsAsFactors = FALSE)
}
# Cluster variable by vector
} else {
# Grouping variable by variable name
if (isTRUE(!is.null(group) && length(group) == 1L)) {
x <- data.frame(x[, var], .group = x[, group], .cluster = cluster, stringsAsFactors = FALSE)
# Grouping variable by vector
} else if (isTRUE(!is.null(group) && length(group) > 1L)) {
x <- data.frame(x[, var], .group = group, .cluster = cluster, stringsAsFactors = FALSE)
# No grouping variable
} else if (isTRUE(is.null(group))) {
x <- data.frame(x[, var], .cluster = cluster, stringsAsFactors = FALSE)
}
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Number of Groups ####
if (isTRUE(!is.null(group))) { ngroups <- length(unique(na.omit(x$.group))) }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Convert User-Missing Values into NA ####
if (isTRUE(!is.null(as.na))) {
x[, var] <- misty::as.na(x[, var], na = as.na, check = check)
# Variable with missing values only
x.miss <- vapply(x[, var], function(y) all(is.na(y)), FUN.VALUE = logical(1L))
if (isTRUE(any(x.miss))) {
stop(paste0("After converting user-missing values into NA, following ",
ifelse(length(which(x.miss)) == 1L, "variable is ", "variables are "), "completely missing: ",
paste(names(which(x.miss)), collapse = ", ")), call. = FALSE)
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Check variance within groups ##
if (isTRUE(!long)) {
check.var <- sapply(split(x, f = x$.group), function(y) apply(y[, var], 2L, var, na.rm = TRUE))
if (isTRUE(any(check.var == 0 | is.na(check.var)))) {
stop(paste0("There is no variance in group ", paste(names(which(apply(check.var, 2L, function(y) any(y == 0 | is.na(y))))), collapse = ", "), " for following variable: ", paste(names(which(apply(check.var, 1L, function(y) any(y == 0 | is.na(y))))), collapse = ", ")), call. = FALSE)
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model ####
# Factor labels for evaluating between-group measurement invariance
if (isTRUE(!is.null(model) && is.list(model) && (is.null(names(model)) || any(names(model) == "")))) {
if (isTRUE(!long)) {
names(model) <- paste0("f", seq_along(model))
} else {
names(model) <- paste0("t", seq_along(model))
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Residual Covariance ####
if (isTRUE(!is.null(rescov) && !is.list(rescov))) { rescov <- list(rescov) }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Level of invariance ####
if (isTRUE(all(c("config", "metric", "scalar", "strict") %in% invar))) {
invar <- "scalar"
} else if (isTRUE(length(invar) != 1L)) {
stop("Please specify a character string for the argument 'invar'.", call. = FALSE)
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model identification ####
# Default setting, fixed factor method
if (isTRUE(all(c("marker", "var", "effect") %in% ident))) {
ident <- "var"
} else if (isTRUE(length(ident) != 1L)) {
stop("Please specify a character string for the argument 'ident'.", call. = FALSE)
}
# Specify arguments 'std.lv' and 'effet.coding'
if (isTRUE(ident == "marker")) {
std.lv <- FALSE
effect.coding <- FALSE
} else if (isTRUE(ident == "var")) {
std.lv <- TRUE
effect.coding <- FALSE
} else if (isTRUE(ident == "effect")) {
std.lv <- FALSE
effect.coding <- TRUE
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Ordered ####
# Ordered-categorical indicators
ordered <- FALSE
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Estimator ####
#...................
### Default setting ####
if (isTRUE(all(c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML") %in% estimator))) {
# Continuous indicators
if (isTRUE(!ordered)) {
if (isTRUE(all(c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML") %in% estimator ))) { estimator <- "MLR" }
# Categorical indicators
} else {
if (isTRUE(all(c("ML", "MLM", "MLMV", "MLMVS", "MLF", "MLR", "GLS", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML") %in% estimator))) { estimator <- "WLSMV" }
# Cluster-robust standard errors
if (isTRUE(!is.null(cluster))) {
stop("Cluster-robust standard errors are not available with ordered-categorical indicators.", call. = FALSE)
}
}
#...................
### User-specified ####
} else {
# Continuous indicators
if (isTRUE(!ordered)) {
# Cluster-robust standard errors
if (isTRUE(!is.null(cluster) && !estimator %in% c("MLR", "MLM", "MLMV", "MLMVS"))) {
warning("Estimator switched to \"MLR\" to computer cluster-robust standard errors.", call. = FALSE)
estimator <- "MLR"
}
# Categorical indicators
} else {
# Cluster-robust standard errors
if (isTRUE(is.null(cluster))) {
if (isTRUE(!estimator %in% c("WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "PML"))) {
warning("Estimator switched to \"WLSMV\" to deal with ordered-categorical indicators.", call. = FALSE)
estimator <- "WLSMV"
}
} else {
stop("Cluster-robust standard errors are not available with ordered-categorical indicators.", call. = FALSE)
}
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Missing ####
# Any missing values
if (isTRUE(any(is.na(x[, var])))) {
complete <- FALSE
#...................
### Default setting ####
if (isTRUE(all(c("listwise", "pairwise", "fiml", "two.stage", "robust.two.stage", "doubly.robust") %in% missing))) {
if (isTRUE(estimator %in% c("ML", "MLF", "MLR"))) {
missing <- "fiml"
} else if (isTRUE(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS"))) {
missing <- "listwise"
} else if (isTRUE(estimator %in% c("DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "DLS", "PML"))) {
missing <- "pairwise"
}
#...................
### User-specified ####
} else {
# FIML
if (isTRUE(missing == "fiml" && !estimator %in% c("ML", "MLF", "MLR"))) {
warning(paste0("FIML method is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS", "DLS"), "\"listwise\"", "\"pairwise\""), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS", "DLS"), "listwise", "pairwise")
}
# Pairwise deletion
if (isTRUE(missing == "pairwise" && !estimator %in% c("ML", "WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "ULSMV", "PML"))) {
warning(paste0("Pairwise deletion is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("MLF", "MLR"), "\"fiml\"", "\"listwise\""), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("MLF", "MLR"), "fiml", "listwise")
}
# (Robust) Two-stage
if (isTRUE(missing %in% c("two.stage", "robust.two.stage") && !estimator %in% c("ML", "MLF", "MLR"))) {
warning(paste0("Two-stage method is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "PML"), "\"pairwise\"", "\"listwise\""), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("WLS", "DWLS", "WLSM", "WLSMV", "ULS", "ULSM", "PML"), "pairwise", "listwise")
}
# Doubly-robust
if (isTRUE(missing == "doubly.robust" && estimator != "PML")) {
warning(paste0("Doubly-robust method is not available for estimator = \"", estimator, "\", argument 'missing' switched to ",
ifelse(estimator %in% c("ML", "MLF", "MLR"), "fiml\"", ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS"), "\"listwise\"", "\"pairwise\"")), "."), call. = FALSE)
missing <- ifelse(estimator %in% c("ML", "MLF", "MLR"), "fiml", ifelse(estimator %in% c("MLM", "MLMV", "MLMVS", "GLS", "WLS"), "listwise", "pairwise"))
}
}
} else {
missing <- "listwise"
complete <- TRUE
}
# Cases with missing on all variables
if (isTRUE(missing %in% c("fiml", "two.stage", "robust.two.stage"))) {
x.na.prop <- misty::na.prop(x[, var])
if (any(x.na.prop == 1L)) {
warning(paste("Data set contains", sum(x.na.prop == 1L), "cases with missing on all variables which were not included in the analysis."), call. = FALSE)
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Print ####
if (isTRUE(all(c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid") %in% print))) {
print <- c("summary", "fit")
} else if (isTRUE(length(print) == 1L && "all" %in% print)) {
print <- c("all", "summary", "coverage", "descript", "fit", "est", "modind", "resid")
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Print Fit ####
if (isTRUE(all(c("all", "standard", "scaled", "robust") %in% print.fit))) {
print.fit <- "robust"
} else if (isTRUE(length(print.fit) == 1L && "all" %in% print.fit)) {
if (isTRUE(estimator == "ML")) { print.fit <- "standard" } else { print.fit <- c("standard", "scaled", "robust") }
}
# Standard fit measures
if (isTRUE(estimator %in% c("ML", "MLMVS", "MLF", "GLS", "WLS", "DWLS", "ULS", "PML"))) { print.fit <- "standard" }
#_____________________________________________________________________________
#
# Main Function --------------------------------------------------------------
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Covariance Coverage ####
coverage <- NULL
if (isTRUE("coverage" %in% print)) {
### Grouping variable
if (isTRUE(is.null(group))) {
coverage <- suppressWarnings(misty::na.coverage(x[, var], output = FALSE)$result)
### No grouping variable
} else {
coverage <- suppressWarnings(lapply(split(x[, var], f = x[, ".group"]), function(y) misty::na.coverage(y, output = FALSE)$result))
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Sample Statistics ####
itemstat <- itemfreq <- NULL
if (isTRUE("descript" %in% print)) {
### No grouping variable
if (isTRUE(is.null(group))) {
# Descriptive statistics
itemstat <- suppressWarnings(misty::descript(x[, var], output = FALSE)$result[, c("variable", "n", "nNA", "pNA", "m", "sd", "min", "max", "skew", "kurt")])
# Frequency table
itemfreq <- suppressWarnings(misty::freq(x[, var], val.col = TRUE, exclude = 9999, output = FALSE)$result)
### Grouping variable
} else {
# Descriptive statistics
itemstat <- suppressWarnings(misty::descript(x[, var], group = x[, ".group"], output = FALSE)$result[, c("group", "variable", "n", "nNA", "pNA", "m", "sd", "min", "max", "skew", "kurt")])
# Frequency table
itemfreq <- suppressWarnings(lapply(split(x[, var], f = x[, ".group"]), function(y) misty::freq(y, val.col = TRUE, exclude = 9999, output = FALSE)$result))
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Syntax ####
#...................
### Latent variable ####
#### Between-group measurement invariance ####
if (isTRUE(!long)) {
##### Model specification with 'x'
if (isTRUE(is.null(model) || !is.list(model))) {
# Configural
mod.factor.config <- paste("f =~", paste(var, collapse = " + "))
# Metric
mod.factor.metric <- paste("f =~", paste0("L", seq_along(var), "*", var, collapse = " + "))
##### Model specification with 'model'
} else if (isTRUE(!is.null(model) && is.list(model))) {
# Configural
mod.factor.config <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0(model[[y]], collapse = " + "))), collapse = " \n")
# Metric
mod.factor.metric <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0("L", y, seq_along(model[[y]]), "*", model[[y]], collapse = " + "))), collapse = " \n")
}
#...................
### Intercept ####
# Scalar
mod.inter.scalar <- paste0(var, " ~ T", seq_along(var), "*1", collapse = " \n")
#...................
### Residual Variance ####
# Strict
mod.resid.strict <- paste0(var, " ~~ E", seq_along(var), "*", var, collapse = " \n")
#### Longitudinal measurement invariance ####
} else {
#...................
### Latent variable ####
# Configural
mod.factor.config <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0(model[[y]], collapse = " + "))), collapse = " \n")
# Metric
mod.factor.metric <- paste(sapply(seq_along(model), function(y) paste(names(model)[[y]], "=~", paste0("L", seq_along(model[[y]]), "*", model[[y]], collapse = " + "))), collapse = " \n")
#...................
### Intercept ####
# Scalar
mod.inter.scalar <- paste(sapply(seq_along(model), function(y) paste(model[[y]], "~", paste0("T", seq_along(model[[y]]), "*1"))), collapse = " \n")
#...................
### Residual Variance ####
# Strict
mod.resid.strict <- paste(sapply(seq_along(model), function(y) paste(model[[y]], "~~", paste0("E", seq_along(model[[y]]), "*", model[[y]]))), collapse = " \n")
}
#...................
### Residual covariances ####
if (isTRUE(!is.null(rescov))) {
# Paste residual covariances
mod.rescov <- paste(vapply(rescov, function(y) paste(y, collapse = " ~~ "), FUN.VALUE = character(1L)), collapse = " \n ")
}
#...................
### Residual covariances between parallel indicators ####
mod.rescov.long <- NULL
if (isTRUE(long && rescov.long)) {
# Paste longitudinal residual covariances
mod.rescov.long <- paste(apply(matrix(unlist(model), nrow = length(model), byrow = TRUE), 2L, function(y) apply(combn(y, m = 2L), 2L, function(z) paste0(z[1L], " ~~ ", z[2L]))), collapse = "\n")
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Specification ####
mod.metric <- mod.scalar <- mod.strict <- NULL
#...................
### Between-group measurement invariance ####
if (isTRUE(!long)) {
#### Configural measurement invariance ####
mod.config <- mod.factor.config
##### Marker variable method
if (isTRUE(ident == "marker")) {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Fix intercept of first indicator at 0 and estimate latent mean
mod.config <- paste0(mod.config, "\n",
paste0(misty::chr.trim(unlist(strsplit(mod.config, "=~"))[[1L]]), " ~ NA*1"), "\n",
paste0(var[1L], " ~ 0*1"))
# Multiple factor model
} else {
# Fix intercept of first indicators at 0 and estimate latent means
mod.config <- paste0(mod.config, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
}
}
#### Metric measurement invariance ####
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric <- mod.factor.metric
##### Marker variable method
switch (ident, marker = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Fix intercept of first indicator at 0 and estimate latent mean
mod.metric <- paste0(mod.metric, "\n",
paste0(misty::chr.trim(unlist(strsplit(mod.metric, "=~"))[[1L]]), " ~ NA*1"), "\n",
paste0(var[1L], " ~ 0*1"))
# Multiple factor model
} else {
# Fix intercept of first indicators at 0 and estimate latent means
mod.metric <- paste0(mod.metric, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
}
##### Fixed factor method
}, var = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
factor <- misty::chr.trim(unlist(strsplit(mod.metric, "=~"))[[1L]])
# Fix factor variance in the first group at 1, but estimate parameter in all other groups
mod.metric <- paste0(mod.metric, "\n",
paste0(factor, " ~~ c(1, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*", factor))
# Multiple factor model
} else {
# Fix factor variance in the first group at 1, but estimate parameter in all other groups
mod.metric <- paste0(mod.metric, "\n",
paste(sapply(names(model), function(y) paste0(y, " ~~ c(1, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*", y)), collapse = " \n"))
}
})
##### Free loadings for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("L", partial)))) { mod.metric <- misty::chr.gsub(paste0(partial[grepl("L", partial)], "*"), "", mod.metric, fixed = TRUE, recycle = TRUE) }
}
#### Scalar measurement invariance ####
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
##### Marker variable method
switch (ident, marker = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Constrain intercepts to be equal across groups (except the first intercept)
mod.scalar <- paste0(mod.metric, "\n",
paste0(unlist(strsplit(mod.inter.scalar, "\n"))[-1L], collapse = "\n"))
} else {
# Constrain intercepts to be equal across groups (except the first intercept)
mod.scalar <- paste0(mod.metric, "\n",
paste(unlist(strsplit(mod.inter.scalar, "\n"))[-sapply(model, function(y) grep(y[1L], unlist(strsplit(mod.inter.scalar, "\n"))))], collapse = "\n"))
}
##### Fixed factor method
}, var = {
# One factor model
if (isTRUE(is.null(model) || !is.list(model) || (is.list(model) && length(model) == 1L))) {
# Constrain intercepts to be equal across groups and estimate latent means (except the first group)
mod.scalar <- paste0(mod.metric, "\n",
paste0(factor, " ~ c(0, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*", "1"), "\n",
mod.inter.scalar)
} else {
# Constrain intercepts to be equal across groups and estimate latent means (except the first group)
mod.scalar <- paste0(mod.metric, "\n",
paste(sapply(names(model), function(y) paste0(y, " ~ c(0, ", paste(rep(NA, times = length(unique(na.omit(x$.group))) - 1L), collapse = ", ") , ")", "*1")), collapse = " \n"), "\n",
mod.inter.scalar)
}
##### Effects coding method
}, effect = {
mod.scalar <- paste0(mod.metric, "\n", mod.inter.scalar)
})
##### Free intercepts for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("T", partial)))) { mod.scalar <- misty::chr.gsub(paste0(partial[grepl("T", partial)], "*"), "", mod.scalar, fixed = TRUE, recycle = TRUE) }
}
#### Strict measurement invariance ####
if (isTRUE("strict" %in% invar)) {
mod.strict <- paste0(mod.scalar, "\n", mod.resid.strict)
##### Free residuals for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("E", partial)))) { mod.strict <- misty::chr.gsub(paste0(partial[grepl("E", partial)], "*"), "", mod.strict, fixed = TRUE, recycle = TRUE) }
}
#...................
### Longitudinal measurement invariance ####
} else {
#### Configural measurement invariance ####
mod.config <- mod.factor.config
##### Marker variable method
if (isTRUE(ident == "metric")) {
# Fix intercept of first indicators at 0 and estimate latent means
mod.config <- paste0(mod.config, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
}
#### Metric measurement invariance ####
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric <- mod.factor.metric
##### Marker variable method
switch (ident, marker = {
# Fix intercept of first indicators at 0 and estimate latent means
mod.metric <- paste0(mod.metric, "\n",
paste0(c(sapply(names(model), function(y) paste0(y, " ~ NA*1")),
sapply(model, function(y) paste0(y[1L], " ~ 0*1"))), collapse = "\n"))
##### Fixed factor method
}, var = {
# Fix factor variance in the first group at 1, but estimate parameter in all other groups
mod.metric <- paste0(mod.metric, "\n",
paste0(sapply(names(model)[-1L], function(y) paste0(y, " ~~ NA*", y)), collapse = " \n"))
})
##### Free loadings for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("L", partial)))) { mod.metric <- misty::chr.gsub(paste0(partial[grepl("L", partial)], "*"), "", mod.metric, fixed = TRUE, recycle = TRUE) }
}
#### Scalar measurement invariance ####
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
##### Marker variable method
switch (ident, marker = {
# Constrain intercepts to be equal across groups (except the first intercept)
mod.scalar <- paste0(mod.metric, "\n",
paste(unlist(strsplit(mod.inter.scalar, "\n"))[-sapply(model, function(y) grep(y[1L], unlist(strsplit(mod.inter.scalar, "\n"))))], collapse = "\n"))
##### Fixed factor method
}, var = {
# Constrain intercepts to be equal across groups and estimate latent means (except the first group)
mod.scalar <- paste0(mod.metric, "\n",
paste0(sapply(names(model)[-1L], function(y) paste0(y, " ~ NA*1")), collapse = " \n"), "\n",
mod.inter.scalar)
##### Effects coding method
}, effect = {
mod.scalar <- paste0(mod.metric, "\n", mod.inter.scalar)
})
##### Free intercepts for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("T", partial)))) { mod.scalar <- misty::chr.gsub(paste0(partial[grepl("T", partial)], "*"), "", mod.scalar, fixed = TRUE, recycle = TRUE) }
}
#### Strict measurement invariance ####
if (isTRUE("strict" %in% invar)) {
mod.strict <- paste0(mod.scalar, "\n", mod.resid.strict)
}
##### Free residual variances for a partial measurement invariance model
if (isTRUE(!is.null(partial) && any(grepl("E", partial)))) { mod.strict <- misty::chr.gsub(paste0(partial[grepl("E", partial)], "*"), "", mod.strict, fixed = TRUE, recycle = TRUE) }
}
#...................
### Residual covariances ####
if (isTRUE(!is.null(rescov))) {
mod.config <- paste0(mod.config, "\n", mod.rescov)
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric <- paste0(mod.metric, "\n", mod.rescov) }
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar <- paste0(mod.scalar, "\n", mod.rescov) }
if (isTRUE("strict" %in% invar)) { mod.strict <- paste0(mod.strict, "\n", mod.rescov) }
}
#...................
### Residual covariances between parallel indicators ####
if (isTRUE(long)) {
mod.config <- paste0(mod.config, "\n", mod.rescov.long)
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric <- paste0(mod.metric, "\n", mod.rescov.long) }
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar <- paste0(mod.scalar, "\n", mod.rescov.long) }
if (isTRUE("strict" %in% invar)) { mod.strict <- paste0(mod.strict, "\n", mod.rescov.long) }
}
#...................
### Proper Null model ####
if (isTRUE(null.model)) {
#...................
### Between-group measurement invariance ####
if (isTRUE(!long)) {
mod.null <- paste0(# Covariances
c(apply(combn(var, m = 2L), 2L, function(y) paste0(y[1L], " ~~ 0*", y[2L])),
# Intercepts
sapply(seq_along(var), function(y) paste0(var[y], " ~ T", y, "*1")),
# Variance
sapply(seq_along(var), function(y) paste0(var[y], " ~~ V", y, "*", var[y]))), collapse = "\n")
#...................
### Longitudinal measurement invariance ####
} else {
mod.null <- paste0(# Covariances
c(apply(combn(var, m = 2L), 2L, function(y) paste0(y[1L], " ~~ 0*", y[2L])),
# Intercepts
sapply(seq_along(model), function(y) paste0(model[[y]], " ~ T", seq_along(model[[y]]), "*1")),
# Variance
sapply(seq_along(model), function(y) paste0(model[[y]], " ~~ V", seq_along(model[[y]]), "*", model[[y]]))), collapse = "\n")
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Function for Convergence and Model Identification Checks ####
conv.ident <- function(model.fit, invar) {
check.vcov <- check.theta <- check.cov.lv <- TRUE
switch(invar, config = {
invar.upp <- "Configural"
invar.low <- "configural"
}, metric = {
invar.upp <- "Metric"
invar.low <- "metric"
}, scalar = {
invar.upp <- "Scalar"
invar.low <- "scalar"
}, strict = {
invar.upp <- "Strict"
invar.low <- "strict"
})
#...................
### Model convergence ####
#### Model not converged
if (isTRUE(!lavaan::lavInspect(model.fit, what = "converged"))) {
stop(paste0(invar.upp, " invariance model did not converge."), call. = FALSE)
#### Model converged
} else {
#...................
### Degrees of freedom ####
if (isTRUE(suppressWarnings(lavaan::lavInspect(model.fit, what = "fit")["df"] < 0L))) { stop(paste0(invar.upp, " invariance model has negative degrees of freedom, model is not identified."), call. = FALSE) }
#...................
### Standard error ####
if (isTRUE(any(is.na(unlist(lavaan::lavInspect(model.fit, what = "se")))))) { stop(paste0("Standard errors of the ", invar.low, " invariance model could not be computed."), call. = FALSE) }
#...................
### Variance-covariance matrix of the estimated parameters ####
eigvals <- eigen(lavaan::lavInspect(model.fit, what = "vcov"), symmetric = TRUE, only.values = TRUE)$values
# Correct for equality constraints
if (isTRUE(any(lavaan::parTable(model.fit)$op == "=="))) { eigvals <- rev(eigvals)[-seq_len(sum(lavaan::parTable(model.fit)$op == "=="))] }
if (isTRUE(min(eigvals) < .Machine$double.eps^(3L/4L))) {
warning(paste0("The variance-covariance matrix of the estimated parameters in the ", invar.low, " invariance model is not positive definite."), call. = FALSE)
check.vcov <- FALSE
}
#...................
### Negative variance of observed variables ####
if (isTRUE(!long)) {
cond.theta1 <- any(sapply(lavaan::lavInspect(model.fit, what = "theta"), diag) < 0)
cond.theta2 <- any(sapply(lavaan::lavTech(model.fit, what = "theta"), function(y) eigen(y, symmetric = TRUE, only.values = TRUE)$values) < (-1L * .Machine$double.eps^(3L/4L)))
} else {
cond.theta1 <- any(diag(lavaan::lavInspect(model.fit, what = "theta")) < 0L)
cond.theta2 <- any(eigen(lavaan::lavTech(model.fit, what = "theta")[[1L]], symmetric = TRUE, only.values = TRUE)$values < (-1L * .Machine$double.eps^(3L/4L)))
}
if (isTRUE(cond.theta1)) {
warning(paste0("Some estimated variances of the observed variables in the ", invar.low, " invariance model are negative."), call. = FALSE)
check.theta <- FALSE
} else if (isTRUE(cond.theta2)) {
warning(paste0("The model-implied variance-covariance matrix of the residuals of the observed variables in the ", invar.low, " invariance model is not positive definite."), call. = FALSE)
check.theta <- FALSE
}
#...................
### Negative variance of latent variables ####
if (isTRUE(!long)) {
cond.theta1 <- any(sapply(lavaan::lavTech(model.fit, what = "cov.lv"), diag) < 0L)
cond.theta1 <- any(sapply(lavaan::lavTech(model.fit, what = "cov.lv"), function(y) eigen(y, symmetric = TRUE, only.values = TRUE)$values) < (-1L * .Machine$double.eps^(3L/4L)))
} else {
cond.theta1 <- any(diag(lavaan::lavTech(model.fit, what = "cov.lv")[[1L]]) < 0L)
cond.theta2 <- any(eigen(lavaan::lavTech(model.fit, what = "cov.lv")[[1L]], symmetric = TRUE, only.values = TRUE)$values < (-1L * .Machine$double.eps^(3L/4L)))
}
if (isTRUE(cond.theta1)) {
warning(paste0("Some estimated variances of the latent variables in the ", invar.low, " invariance model are negative."), call. = FALSE)
check.cov.lv <- FALSE
# Model-implied variance-covariance matrix of the latent variables
} else if (isTRUE(cond.theta2)) {
warning("The model-implied variance-covariance matrix of the latent variables in the ", invar.low, " invariance model is not positive definite.", call. = FALSE)
check.cov.lv <- FALSE
}
}
# Return object
return(c(check.vcov = check.vcov, check.theta = check.theta, check.cov.lv = check.cov.lv))
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Estimation ####
mod.config.fit <- mod.metric.fit <- mod.scalar.fit <- mod.strict.fit <- mod.config.fit.check <- mod.metric.fit.check <- mod.scalar.fit.check <- mod.strict.fit.check <- NULL
#...................
### Configural measurement invariance
mod.config.fit <- suppressWarnings(lavaan::cfa(mod.config, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.config.fit.check <- conv.ident(mod.config.fit, invar = "config") }
#...................
### Metric measurement invariance
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric.fit <- suppressWarnings(lavaan::cfa(mod.metric, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.metric.fit.check <- conv.ident(mod.metric.fit, invar = "metric") }
}
#...................
### Scalar measurement invariance
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
mod.scalar.fit <- suppressWarnings(lavaan::cfa(mod.scalar, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.scalar.fit.check <- conv.ident(mod.scalar.fit, invar = "scalar") }
}
#...................
### Strict measurement invariance
if (isTRUE("strict" %in% invar)) {
mod.strict.fit <- suppressWarnings(lavaan::cfa(mod.strict, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
#### Convergence and model identification checks ####
if (isTRUE(check)) { mod.strict.fit.check <- conv.ident(mod.strict.fit, invar = "strict") }
}
#...................
### Proper Null model ####
if (isTRUE(null.model)) {
mod.null.fit <- suppressWarnings(lavaan::cfa(mod.null, data = x, ordered = ordered, meanstructure = TRUE,
group = if (isTRUE(long)) { NULL } else { ".group" },
cluster = if (isTRUE(is.null(cluster))) { NULL } else { ".cluster" },
std.lv = std.lv, effect.coding = effect.coding,
estimator = estimator, missing = missing))
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Chi-Squared Difference Test ####
#...................
### Configural vs. metric measurement invariance
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
chidiff.conf.met <- tryCatch(lavaan::lavTestLRT(mod.config.fit, mod.metric.fit),
error = function(y) { data.frame(matrix(NA, ncol = 7L, dimnames = list(NULL, c("Df", "AIC", "BIC", "Chisq", "Chisq diff", "Df diff", "Pr(>Chisq)"))), check.names = FALSE) },
warning = function(z) { suppressWarnings(lavaan::lavTestLRT(mod.config.fit, mod.metric.fit, method = "satorra.bentler.2010")) })
}
#...................
### Metric vs. scalar measurement invariance
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
chidiff.met.sca <- tryCatch(lavaan::lavTestLRT(mod.metric.fit, mod.scalar.fit),
error = function(y) { data.frame(matrix(NA, ncol = 7L, dimnames = list(NULL, c("Df", "AIC", "BIC", "Chisq", "Chisq diff", "Df diff", "Pr(>Chisq)"))), check.names = FALSE) },
warning = function(z) { suppressWarnings(lavaan::lavTestLRT(mod.metric.fit, mod.scalar.fit, method = "satorra.bentler.2010")) })
}
#...................
### Strong vs. strict measurement invariance
if (isTRUE(invar == "strict")) {
chidiff.sca.str <- tryCatch(lavaan::lavTestLRT(mod.scalar.fit, mod.strict.fit),
error = function(y) { data.frame(matrix(NA, ncol = 7L, dimnames = list(NULL, c("Df", "AIC", "BIC", "Chisq", "Chisq diff", "Df diff", "Pr(>Chisq)"))), check.names = FALSE) },
warning = function(z) { suppressWarnings(lavaan::lavTestLRT(mod.scalar.fit, mod.strict.fit, method = "satorra.bentler.2010")) })
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Model Fit ####
#### Configural invariance model
lav.fit.config <- suppressWarnings(lavaan::fitmeasures(mod.config.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL }))
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { lav.fit.metric <- suppressWarnings(lavaan::fitmeasures(mod.metric.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL })) } else { lav.fit.metric <- NULL }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { lav.fit.scalar <- suppressWarnings(lavaan::fitmeasures(mod.scalar.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL })) } else { lav.fit.scalar <- NULL }
#### Strict invariance model
if (isTRUE(invar == "strict")) { lav.fit.strict <- suppressWarnings(lavaan::fitmeasures(mod.strict.fit, baseline.model = if (isTRUE(null.model)) { mod.null.fit } else { NULL })) } else { lav.fit.strict <- NULL }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Parameter estimates ####
mod.metric.param <- mod.scalar.param <- mod.strict.param <- NULL
if (isTRUE(!long)) {
#### Configural invariance model
mod.config.param <- within(data.frame(lavaan::parameterEstimates(mod.config.fit), stdyx = lavaan::standardizedsolution(mod.config.fit)[, "est.std"]), assign("label", ""))[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")]
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric.param <- data.frame(lavaan::parameterEstimates(mod.metric.fit), stdyx = lavaan::standardizedsolution(mod.metric.fit)[, "est.std"])[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar.param <- data.frame(lavaan::parameterEstimates(mod.scalar.fit), stdyx = lavaan::standardizedsolution(mod.scalar.fit)[, "est.std"])[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Strict invariance model
if (isTRUE(invar == "strict")) { mod.strict.param <- data.frame(lavaan::parameterEstimates(mod.strict.fit), stdyx = lavaan::standardizedsolution(mod.strict.fit)[, "est.std"])[, c("group", "lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
} else {
#### Configural invariance model
mod.config.param <- within(data.frame(lavaan::parameterEstimates(mod.config.fit), stdyx = lavaan::standardizedsolution(mod.config.fit)[, "est.std"]), assign("label", ""))[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")]
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric.param <- data.frame(lavaan::parameterEstimates(mod.metric.fit), stdyx = lavaan::standardizedsolution(mod.metric.fit)[, "est.std"])[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar.param <- data.frame(lavaan::parameterEstimates(mod.scalar.fit), stdyx = lavaan::standardizedsolution(mod.scalar.fit)[, "est.std"])[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
#### Strict invariance model
if (isTRUE(invar == "strict")) { mod.strict.param <- data.frame(lavaan::parameterEstimates(mod.strict.fit), stdyx = lavaan::standardizedsolution(mod.strict.fit)[, "est.std"])[, c("lhs", "op", "rhs", "label", "est", "se", "z", "pvalue", "stdyx")] }
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Modification Indices ####
mod.config.modind <- mod.metric.modind <- mod.scalar.modind <- mod.strict.modind <- NULL
if (isTRUE(estimator != "PML" && "modind" %in% print)) {
#### Configural invariance model
mod.config.modind <- tryCatch(lavaan::modindices(mod.config.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.config.modind))) { mod.config.modind <- misty::df.rename(mod.config.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric.modind <- tryCatch(lavaan::modindices(mod.metric.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.metric.modind))) { mod.metric.modind <- misty::df.rename(mod.metric.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
}
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
mod.scalar.modind <- tryCatch(lavaan::modindices(mod.scalar.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.scalar.modind))) { mod.scalar.modind <- misty::df.rename(mod.scalar.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
}
#### Strict invariance model
if (isTRUE(invar == "strict")) {
mod.strict.modind <- tryCatch(lavaan::modindices(mod.strict.fit), error = function(y) NULL, warning = function(z) {})
if (isTRUE(!is.null(mod.strict.modind))) { mod.strict.modind <- misty::df.rename(mod.strict.modind[, if (isTRUE(!long)) { c("group", "lhs", "op", "rhs", "mi", "epc", "sepc.all") } else { c("lhs", "op", "rhs", "mi", "epc", "sepc.all") } ], from = "sepc.all", to = "stdyx") }
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Score Test ####
mod.metric.score <- mod.scalar.score <- mod.strict.score <- NULL
if (isTRUE("modind" %in% print)) {
if (isTRUE(estimator != "PML")) {
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { mod.metric.score <- tryCatch(lavaan::lavTestScore(mod.metric.fit, epc = TRUE, warn = FALSE), error = function(y) NULL, warning = function(z) {}) }
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { mod.scalar.score <- tryCatch(lavaan::lavTestScore(mod.scalar.fit, epc = TRUE, warn = FALSE), error = function(y) NULL, warning = function(z) {}) }
#### Strict invariance model
if (isTRUE(invar == "strict")) { mod.strict.score <- tryCatch(lavaan::lavTestScore(mod.strict.fit, epc = TRUE, warn = FALSE), error = function(y) NULL, warning = function(z) {}) }
}
#### Metric invariance model
if (isTRUE(!is.null(mod.metric.score))) {
# Parameter table
partable <- lavaan::parTable(mod.metric.fit)
# Univariate score statistics
uniscore <- mod.metric.score$uni
# Effects coding
if (isTRUE(ident == "effect")) { uniscore <- uniscore[-grep("-", uniscore$rhs), ] }
# Expected parameter change
epcscore <- mod.metric.score$epc
# Between-group measurement invariance
if (isTRUE(!long)) {
mod.metric.score <- data.frame(label = NA, group.lhs = NA, group.rhs = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.metric.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
group.lhs = partable[partable$plabel == uniscore[i, "lhs"], "group"],
group.rhs = partable[partable$plabel == uniscore[i, "rhs"], "group"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
# Longitudinal measurement invariance
} else {
mod.metric.score <- data.frame(label = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.metric.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
}
}
#### Scalar invariance model
if (isTRUE(!is.null(mod.scalar.score))) {
# Parameter table
partable <- lavaan::parTable(mod.scalar.fit)
# Univariate score statistics
uniscore <- mod.scalar.score$uni
# Expected parameter change
epcscore <- mod.scalar.score$epc
# Between-group measurement invariance
if (isTRUE(!long)) {
mod.scalar.score <- data.frame(label = NA, group.lhs = NA, group.rhs = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.scalar.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
group.lhs = partable[partable$plabel == uniscore[i, "lhs"], "group"],
group.rhs = partable[partable$plabel == uniscore[i, "rhs"], "group"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
# Longitudinal measurement invariance
} else {
mod.scalar.score <- data.frame(label = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.scalar.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
}
}
#### Strict invariance model
if (isTRUE(!is.null(mod.strict.score))) {
# Parameter table
partable <- lavaan::parTable(mod.strict.fit)
# Univariate score statistics
uniscore <- mod.strict.score$uni
# Expected parameter change
epcscore <- mod.strict.score$epc
# Between-group measurement invariance
if (isTRUE(!long)) {
mod.strict.score <- data.frame(label = NA, group.lhs = NA, group.rhs = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.strict.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
group.lhs = partable[partable$plabel == uniscore[i, "lhs"], "group"],
group.rhs = partable[partable$plabel == uniscore[i, "rhs"], "group"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
# Longitudinal measurement invariance
} else {
mod.strict.score <- data.frame(label = NA, lhs = NA, op = NA, rhs = NA, mi = NA, df = NA, pvalue = NA, lhs.epc = NA, rhs.epc = NA, lhs.stdyx = NA, rhs.stdyx = NA)
for (i in seq_len(nrow(uniscore))) {
mod.strict.score[i, ] <- data.frame(label = partable[partable$plabel == uniscore[i, "lhs"], "label"],
lhs = paste0(partable[partable$plabel == uniscore[i, "lhs"], c("lhs", "op", "rhs")], collapse = " "),
op = "==",
rhs = paste0(partable[partable$plabel == uniscore[i, "rhs"], c("lhs", "op", "rhs")], collapse = " "),
mi = uniscore[i, "X2"], df = uniscore[i, "df"], pvalue = uniscore[i, "p.value"],
lhs.epc = epcscore[partable$plabel == uniscore[i, "lhs"], "epc"],
rhs.epc = epcscore[partable$plabel == uniscore[i, "rhs"], "epc"],
lhs.stdyx = epcscore[partable$plabel == uniscore[i, "lhs"], "sepc.all"],
rhs.stdyx = epcscore[partable$plabel == uniscore[i, "rhs"], "sepc.all"])
}
}
}
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Residual Correlation Matrix ####
mod.config.resid <- mod.metric.resid <- mod.scalar.resid <- mod.strict.resid <- NULL
if (isTRUE("resid" %in% print)) {
#### Configural invariance model
mod.config.resid <- tryCatch(lavaan::lavResiduals(mod.config.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.config.resid <- lapply(mod.config.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.config.resid <- rbind(mod.config.resid$cov, mean = mod.config.resid$mean)
}
#### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) {
mod.metric.resid <- tryCatch(lavaan::lavResiduals(mod.metric.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.metric.resid <- lapply(mod.metric.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.metric.resid <- rbind(mod.metric.resid$cov, mean = mod.metric.resid$mean)
}
}
#### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) {
mod.scalar.resid <- tryCatch(lavaan::lavResiduals(mod.scalar.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.scalar.resid <- lapply(mod.scalar.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.scalar.resid <- rbind(mod.scalar.resid$cov, mean = mod.scalar.resid$mean)
}
}
#### Strict invariance model
if (isTRUE(invar == "strict")) {
mod.strict.resid <- tryCatch(lavaan::lavResiduals(mod.strict.fit, type = "cor.bollen"), error = function(y) NULL, warning = function(z) {})
# Combine residual correlation matrix and standardized residual means
if (isTRUE(!long)) {
mod.strict.resid <- lapply(mod.strict.resid, function(y) rbind(y$cov, mean = y$mean))
} else {
mod.strict.resid <- rbind(mod.strict.resid$cov, mean = mod.strict.resid$mean)
}
}
}
#_____________________________________________________________________________
#
# Return object --------------------------------------------------------------
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## lavaan summary ####
#...................
### Cluster
cluster.unique <- 1
if (isTRUE(!is.null(cluster))) {
#### Between-group measurement invariance
if (isTRUE(!long)) {
# Number of clusters
cluster.unique <- tapply(x$.cluster, x$.group, function(y) length(unique(na.omit(y))))
#### Longitudinal measurement invariance
} else {
# Number of clusters
cluster.unique <- length(unique(na.omit(x$.cluster)))
}
}
lavaan.summary <- data.frame(### First column
c(paste("lavaan", lavaan::lavInspect(mod.config.fit, what = "version")), "",
"Estimator", "Optimization Method", "",
"Test Statistic", "Standard Errors", "Missing Data", "",
"Indicators", "Identification", "", "",
"Number of Model Parameters", "Number of Equality Constraints", "", "",
if (isTRUE(!long)) { "Total Number of Observations" } else { "Number of Observations" }, "Number of Observations per Group", if (isTRUE(lavaan::lavInspect(mod.config.fit, what = "ngroups") == 1L)) { "1" } else { lavaan::lavInspect(mod.config.fit, what = "group.label") },
"Number of Clusters", if (isTRUE(!is.null(cluster) && !is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }),
### Second column
c("", "",
# Estimator
estimator,
# Optimization method
toupper(lavaan::lavTech(mod.config.fit, what = "options")$optim.method), "",
# Test statistic
switch(lavaan::lavTech(mod.config.fit, what = "options")$test[1L],
"standard" = "Conventional",
"satorra.bentler" = "Satorra-Bentler",
"scaled.shifted" = "Scale-Shifted",
"mean.var.adjusted" = "Satterthwaite",
"yuan.bentler.mplus" = "Yuan-Bentler"),
# Standard errors
switch(lavaan::lavTech(mod.config.fit, what = "options")$se,
"standard" = "Conventional",
"robust.sem" = "Conventional Robust",
"robust.huber.white" = "Huber-White",
"robust.cluster" = "Cluster-Robust H-W",
"robust.cluster.sem" = "Cluster-Robust Conven",
"two.stage" = "Two-Stage",
"robust.two.stage" = "Robust Two-Stage"),
# Missing data
ifelse(isTRUE(complete), "None",
switch(missing,
"listwise" = "Listwise Deletion",
"pairwise" = "Pairwise Deletion",
"fiml" = "FIML",
"two.stage" = "Two-Stage",
"robust.two.stage" = "Robust Two-Stage",
"doubly.robust" = "Doubly-Robust")), "",
# Indicators
ifelse(isTRUE(!ordered), "Continuous", "Ordered-Categorical"),
# Identification
switch(ident, "marker" = "Marker Variable", "var" = "Factor Variance", "effect" = "Effects Coding"), "", "Config",
# Number of model parameters
max(lavaan::parTable(mod.config.fit)$free),
# Number of equality constraints
sum(lavaan::parTable(mod.config.fit)$op == "=="), "", "Used",
# Total number of observations
sum(lavaan::lavInspect(mod.config.fit, what = "nobs")), "",
# Number of observations per group
lavaan::lavInspect(mod.config.fit, what = "nobs"), if (isTRUE(!is.null(cluster) && !is.null(group))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { cluster.unique } else { "1" }),
### Third column
c(rep("", times = 12L), "Metric",
# Number of model parameters
if (isTRUE(!is.null(mod.metric.fit))) { c(max(lavaan::parTable(mod.metric.fit)$free), sum(lavaan::parTable(mod.metric.fit)$op == "==")) } else { c("", "") }, "", "Total",
# Total number of observations
sum(lavaan::lavInspect(mod.config.fit, what = "norig")), "",
# Number of observations per group
lavaan::lavInspect(mod.config.fit, what = "norig"), if (isTRUE(!is.null(group) && !is.null(cluster))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { rep("", times = length(cluster.unique)) } else { "" }),
### Fourth column
c(rep("", times = 12L), "Scalar",
# Number of model parameters
if (isTRUE(!is.null(mod.scalar.fit))) { c(max(lavaan::parTable(mod.scalar.fit)$free), sum(lavaan::parTable(mod.scalar.fit)$op == "==")) } else { c("", "") }, "", "",
# Number of observations used
"", "", rep("", times = length(lavaan::lavInspect(mod.config.fit, what = "nobs"))), if (isTRUE(!is.null(group) && !is.null(cluster))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { rep("", times = length(cluster.unique)) } else { "" }),
### Fifth column
c(rep("", times = 12L), "Strict",
# Number of model parameters
if (isTRUE(!is.null(mod.strict.fit))) { c(max(lavaan::parTable(mod.strict.fit)$free), sum(lavaan::parTable(mod.strict.fit)$op == "==")) } else { c("", "") }, "", "",
# Number of observations used
"", "", rep("", times = length(lavaan::lavInspect(mod.config.fit, what = "nobs"))), if (isTRUE(!is.null(group) && !is.null(cluster))) { "" },
# Number of clusters
if (isTRUE(!is.null(cluster))) { rep("", times = length(cluster.unique)) } else { "" }), fix.empty.names = FALSE)
#### Configural invariance model
if (isTRUE(invar == "config")) { lavaan.summary <- lavaan.summary[, c(1L:3L)]; lavaan.summary[c(13L:15L), 3L] <- "" }
#### Metric invariance model
if (isTRUE(invar == "metric")) { lavaan.summary <- lavaan.summary[, c(1L:3L)] }
#### Scalar invariance model
if (isTRUE(invar == "scalar")) { lavaan.summary <- lavaan.summary[, c(1L:4L)] }
#...................
### No grouping variable
if (isTRUE(is.null(group))) { lavaan.summary <- lavaan.summary[-c(19L:20L), ] }
#...................
### No cluster variable
if (isTRUE(is.null(cluster))) { lavaan.summary <- lavaan.summary[-c(which(lavaan.summary[, 1L] %in% c("Number of Clusters")):nrow(lavaan.summary)), ] }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Extract and Combine Model Fit Indices ####
#...................
### Configural invariance model ####
#### Standard fit indices
fit.stand <- data.frame(### Fist column
c("Chi-Square Test of Model Fit", "Test statistic", if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }, "Degrees of freedom", "P-value", "",
"Incremental Fit Indices", "CFI", "TLI", "",
"Absolute Fit Indices", "RMSEA", "90 Percent CI - lower", "90 Percent CI - upper", "P-value RMSEA <= 0.05", "", "SRMR", "",
"Information Criteria", "Akaike (AIC)", "Bayesian (BIC)", "Sample-Size Adjusted BIC"),
### Second column
config = c(NA, lav.fit.config["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "test")$standard$stat.group }, lav.fit.config[c("df", "pvalue")], NA,
NA, lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.config[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(### Fist column
c("Chi-Square Test of Model Fit", "Test statistic", if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }, "Degrees of freedom", "P-value", "Scaling Correction Factor", "",
"Incremental Fit Indices", "CFI", "TLI", "",
"Absolute Fit Indices", "RMSEA", "90 Percent CI - lower", "90 Percent CI - upper", "P-value RMSEA <= 0.05", "", "SRMR", "",
"Information Criteria", "Akaike (AIC)", "Bayesian (BIC)", "Sample-Size Adjusted BIC"),
### Second column
config = c(NA, lav.fit.config["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.config[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.config[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(### Fist column
c("Chi-Square Test of Model Fit", "Test statistic", if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.config.fit, what = "group.label") }, "Degrees of freedom", "P-value", "Scaling Correction Factor", "",
"Incremental Fit Indices", "CFI", "TLI", "",
"Absolute Fit Indices", "RMSEA", "90 Percent CI - lower", "90 Percent CI - upper", "P-value RMSEA <= 0.05", "", "SRMR", "",
"Information Criteria", "Akaike (AIC)", "Bayesian (BIC)", "Sample-Size Adjusted BIC"),
### Second column
config = c(NA, lav.fit.config["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.config.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.config[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.config[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#...................
### Metric invariance model ####
switch (invar, metric = {
#### Standard fit indices
fit.stand <- data.frame(fit.stand,
### Third column
metric = c(NA, lav.fit.metric["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.metric.fit, what = "test")$standard$stat.group }, lav.fit.metric[c("df", "pvalue")], NA,
NA, lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.metric[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.metric[c("cfi", "tli")] - lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.metric["rmsea"] - lav.fit.config["rmsea"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(fit.scaled,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")] - lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric["rmsea.scaled"] - lav.fit.config["rmsea.scaled"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(fit.robust,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")] - lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric["rmsea.robust"] - lav.fit.config["rmsea.robust"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#...................
### Scalar invariance model ####
}, scalar = {
fit.stand <- data.frame(fit.stand,
### Third column
metric = c(NA, lav.fit.metric["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.metric.fit, what = "test")$standard$stat.group }, lav.fit.metric[c("df", "pvalue")], NA,
NA, lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.metric[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.scalar.fit, what = "test")$standard$stat.group }, lav.fit.scalar[c("df", "pvalue")], NA,
NA, lav.fit.scalar[c("cfi", "tli")], NA,
NA, lav.fit.scalar[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.metric[c("cfi", "tli")] - lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.metric["rmsea"] - lav.fit.config["rmsea"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Sixth column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.scalar[c("cfi", "tli")] - lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.scalar["rmsea"] - lav.fit.metric["rmsea"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(fit.scaled,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")] - lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric["rmsea.scaled"] - lav.fit.config["rmsea.scaled"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Sixth column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")] - lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar["rmsea.scaled"] - lav.fit.metric["rmsea.scaled"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(fit.robust,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")] - lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric["rmsea.robust"] - lav.fit.config["rmsea.robust"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Sixth column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")] - lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar["rmsea.robust"] - lav.fit.metric["rmsea.robust"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#...................
### Strict invariance model ####
}, strict = {
#### Standard fit indices
fit.stand <- data.frame(fit.stand,
### Third column
metric = c(NA, lav.fit.metric["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.metric.fit, what = "test")$standard$stat.group }, lav.fit.metric[c("df", "pvalue")], NA,
NA, lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.metric[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.scalar.fit, what = "test")$standard$stat.group }, lav.fit.scalar[c("df", "pvalue")], NA,
NA, lav.fit.scalar[c("cfi", "tli")], NA,
NA, lav.fit.scalar[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
strict = c(NA, lav.fit.strict["chisq"], if (isTRUE(!is.null(group))) { lavaan::lavInspect(mod.strict.fit, what = "test")$standard$stat.group }, lav.fit.strict[c("df", "pvalue")], NA,
NA, lav.fit.strict[c("cfi", "tli")], NA,
NA, lav.fit.strict[c("rmsea", "rmsea.ci.lower", "rmsea.ci.upper", "rmsea.pvalue")], NA, lav.fit.strict["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")]),
### Sixth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.metric[c("cfi", "tli")] - lav.fit.config[c("cfi", "tli")], NA,
NA, lav.fit.metric["rmsea"] - lav.fit.config["rmsea"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Seventh column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.scalar[c("cfi", "tli")] - lav.fit.metric[c("cfi", "tli")], NA,
NA, lav.fit.scalar["rmsea"] - lav.fit.metric["rmsea"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]),
### Eight column
dstrict = c(NA, unlist(chidiff.sca.str[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.sca.str[2L, c("Df diff", "Pr(>Chisq)")]), NA,
NA, lav.fit.strict[c("cfi", "tli")] - lav.fit.scalar[c("cfi", "tli")], NA,
NA, lav.fit.strict["rmsea"] - lav.fit.scalar["rmsea"], NA, NA, NA, NA, lav.fit.strict["srmr_bentler"] - lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")] - lav.fit.scalar[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Scaled fit indices
fit.scaled <- data.frame(fit.scaled,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
strict = c(NA, lav.fit.strict["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.strict[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.strict[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.strict[c("rmsea.scaled", "rmsea.ci.lower.scaled", "rmsea.ci.upper.scaled", "rmsea.pvalue.scaled")], NA, lav.fit.strict["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")]),
### Sixth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.scaled", "tli.scaled")] - lav.fit.config[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.metric["rmsea.scaled"] - lav.fit.config["rmsea.scaled"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Seventh column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.scaled", "tli.scaled")] - lav.fit.metric[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.scalar["rmsea.scaled"] - lav.fit.metric["rmsea.scaled"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]),
### Eight column
dstrict = c(NA, unlist(chidiff.sca.str[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.sca.str[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.strict[c("cfi.scaled", "tli.scaled")] - lav.fit.scalar[c("cfi.scaled", "tli.scaled")], NA,
NA, lav.fit.strict["rmsea.scaled"] - lav.fit.scalar["rmsea.scaled"], NA, NA, NA, NA, lav.fit.strict["srmr_bentler"] - lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")] - lav.fit.scalar[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
#### Robust fit indices
fit.robust <- data.frame(fit.robust,
### Third column
metric = c(NA, lav.fit.metric["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.metric.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.metric[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")]),
### Fourth column
scalar = c(NA, lav.fit.scalar["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.scalar.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.scalar[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")]),
### Fifth column
strict = c(NA, lav.fit.strict["chisq.scaled"], if (isTRUE(!is.null(group))) {
if (isTRUE(estimator %in% c("MLM", "WLSM", "DLS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$satorra.bentler$stat.group
} else if(isTRUE(estimator %in% c("WLSMV", "ULSM", "MLMV", "ULSMV", "ULS"))) {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$scaled.shifted$stat.group
} else {
stat <- lavaan::lavInspect(mod.strict.fit, what = "test")$yuan.bentler.mplus$stat.group
}
if (isTRUE(is.null(stat))) {
rep(NA, times = ngroups)
} else {
stat
}
}, lav.fit.strict[c("df.scaled", "pvalue.scaled", "chisq.scaling.factor")], NA,
NA, lav.fit.strict[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.strict[c("rmsea.robust", "rmsea.ci.lower.robust", "rmsea.ci.upper.robust", "rmsea.pvalue.robust")], NA, lav.fit.strict["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")]),
### Sixth column
dmetric = c(NA, unlist(chidiff.conf.met[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.conf.met[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.metric[c("cfi.robust", "tli.robust")] - lav.fit.config[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.metric["rmsea.robust"] - lav.fit.config["rmsea.robust"], NA, NA, NA, NA, lav.fit.metric["srmr_bentler"] - lav.fit.config["srmr_bentler"], NA,
NA, lav.fit.metric[c("aic", "bic", "bic2")] - lav.fit.config[c("aic", "bic", "bic2")]),
### Seventh column
dscalar = c(NA, unlist(chidiff.met.sca[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.met.sca[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.scalar[c("cfi.robust", "tli.robust")] - lav.fit.metric[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.scalar["rmsea.robust"] - lav.fit.metric["rmsea.robust"], NA, NA, NA, NA, lav.fit.scalar["srmr_bentler"] - lav.fit.metric["srmr_bentler"], NA,
NA, lav.fit.scalar[c("aic", "bic", "bic2")] - lav.fit.metric[c("aic", "bic", "bic2")]),
### Eight column
dstrict = c(NA, unlist(chidiff.sca.str[2L, "Chisq diff"]), if (isTRUE(!is.null(group))) { rep(NA, times = ngroups) }, unlist(chidiff.sca.str[2L, c("Df diff", "Pr(>Chisq)")]), NA, NA,
NA, lav.fit.strict[c("cfi.robust", "tli.robust")] - lav.fit.scalar[c("cfi.robust", "tli.robust")], NA,
NA, lav.fit.strict["rmsea.robust"] - lav.fit.scalar["rmsea.robust"], NA, NA, NA, NA, lav.fit.strict["srmr_bentler"] - lav.fit.scalar["srmr_bentler"], NA,
NA, lav.fit.strict[c("aic", "bic", "bic2")] - lav.fit.scalar[c("aic", "bic", "bic2")]), fix.empty.names = FALSE)
})
# Remove scaled / robust fit indices and information criteria
if (isTRUE(estimator %in% c("ML", "MLF", "GLS", "WLS", "DWLS", "ULS", "PML"))) {
fit.scaled <- NULL
fit.robust <- NULL
if (isTRUE(estimator %in% c("GLS", "WLS", "DWLS", "ULS", "PML"))) {
fit.stand <- fit.stand[-c((which(fit.stand[, 1L] == "Information Criteria") - 1L):nrow(fit.stand)), ]
}
}
# Remove information criteria
if (isTRUE(estimator %in% c("DLS", "WLSM", "WLSMV", "ULSM", "ULSMV"))) {
fit.stand <- fit.stand[-c((which(fit.stand[, 1L] == "Information Criteria") - 1L):nrow(fit.stand)), ]
fit.scaled <- fit.scaled[-c((which(fit.scaled[, 1L] == "Information Criteria") - 1L):nrow(fit.scaled)), ]
fit.robust <- fit.robust[-c((which(fit.robust[, 1L] == "Information Criteria") - 1L):nrow(fit.robust)), ]
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Parameter estimates ####
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Function for Parameter Estimates ####
model.fit.param <- function(model.param, long = long) {
# Latent variables
print.latent <- model.param[which(model.param$op == "=~"), ]
# Latent variable covariances
print.lv.cov <- model.param[which(model.param$op == "~~" & (model.param$lhs != model.param$rhs) & (model.param$lhs %in% print.latent$lhs) & (model.param$rhs %in% print.latent$lhs)), ]
# Residual covariances
print.res.cov <- model.param[which(model.param$op == "~~" & (model.param$lhs != model.param$rhs) & (!model.param$lhs %in% print.latent$lhs) & (!model.param$rhs %in% print.latent$lhs)), ]
# Latent mean
print.mean <- model.param[which(model.param$op == "~1" & model.param$lhs %in% print.latent$lhs), ]
# Latent variance
print.var <- model.param[which(model.param$op == "~~" & (model.param$lhs %in% print.latent$lhs) & (model.param$lhs == model.param$rhs)), ]
#if (isTRUE(!is.null(model))) { print.var <- print.var[match(names(model), print.var$lhs), ] }
# Intercepts
print.interc <- model.param[which(model.param$op == "~1" & !model.param$lhs %in% print.latent$lhs), ]
# Thresholds
print.thres <- model.param[which(model.param$op == "|"), ]
# Scales
print.scale <- model.param[which(model.param$op == "~*~"), ]
# Residual variance
print.resid <- model.param[which(model.param$op == "~~" & (model.param$lhs == model.param$rhs) & (!model.param$lhs %in% print.latent$lhs) & (!model.param$rhs %in% print.latent$lhs)), ]
# Model parameters
model.param <- rbind(data.frame(param = "latent variable", print.latent),
if (nrow(print.lv.cov) > 0L) { data.frame(param = "latent variable covariance", print.lv.cov) } else { NULL },
if (nrow(print.res.cov) > 0L) { data.frame(param = "residual covariance", print.res.cov) } else { NULL },
if (nrow(print.mean) > 0L) { data.frame(param = "latent mean", print.mean) } else { NULL },
if (nrow(print.var) > 0L) { data.frame(param = "latent variance", print.var) } else { NULL },
if (nrow(print.interc) > 0L) { data.frame(param = "intercept", print.interc) } else { NULL },
if (nrow(print.thres) > 0L) { data.frame(param = "threshold", print.thres) } else { NULL },
if (nrow(print.scale) > 0L) { data.frame(param = "scale", print.scale) } else { NULL },
if (nrow(print.resid) > 0L) { data.frame(param = "residual variance", print.resid) } else { NULL })
#...................
### Add labels ####
# Latent mean, intercept, and threshold
model.param[model.param$param %in% c("latent mean", "intercept"), "rhs"] <- model.param[model.param$param %in% c("latent mean", "intercept"), "lhs"]
if (isTRUE(any(model.param$param == "threshold"))) {
model.param[model.param$param == "threshold", "rhs"] <- apply(model.param[model.param$param == "threshold", c("lhs", "rhs")], 1L, paste, collapse = "|")
}
#### Latent variables
##### Between-group measurement invariance
if (isTRUE(!long)) {
print.lv <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable"), "lhs"])) {
# Loop across groups
for (j in unique(model.param$group)) {
print.lv <- rbind(print.lv,
data.frame(param = "latent variable", group = j, lhs = i, op = "", rhs = paste(i, "=~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable" & model.param$lhs == i & model.param$group == j), ])
}
}
##### Longitudinal measurement invariance
} else {
print.lv <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable"), "lhs"])) {
print.lv <- rbind(print.lv,
data.frame(param = "latent variable", lhs = i, op = "", rhs = paste(i, "=~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable" & model.param$lhs == i), ])
}
}
#### Latent variable covariances
##### Between-group measurement invariance
if (isTRUE(!long)) {
print.lv.cov <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable covariance"), "lhs"])) {
# Loop across groups
for (j in unique(model.param$group)) {
print.lv.cov <- rbind(print.lv.cov,
data.frame(param = "latent variable covariance", group = j, lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable covariance" & model.param$lhs == i & model.param$group == j), ])
}
}
##### Longitudinal measurement invariance
} else {
print.lv.cov <- NULL
for (i in unique(model.param[which(model.param$param == "latent variable covariance"), "lhs"])) {
print.lv.cov <- rbind(print.lv.cov,
data.frame(param = "latent variable covariance", lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "latent variable covariance" & model.param$lhs == i), ])
}
}
#### Residual covariances
##### Between-group measurement invariance
if (isTRUE(!long)) {
print.res.cov <- NULL
for (i in unique(model.param[which(model.param$param == "residual covariance"), "lhs"])) {
# Loop across groups
for (j in unique(model.param$group)) {
print.res.cov <- rbind(print.res.cov,
data.frame(param = "residual covariance", group = j, lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "residual covariance" & model.param$lhs == i & model.param$group == j), ])
}
}
##### Longitudinal measurement invariance
} else {
print.res.cov <- NULL
for (i in unique(model.param[which(model.param$param == "residual covariance"), "lhs"])) {
print.res.cov <- rbind(print.res.cov,
data.frame(param = "residual covariance", lhs = i, op = "", rhs = paste(i, "~~"), label = "", est = NA, se = NA, z = NA, pvalue = NA, stdyx = NA),
model.param[which(model.param$param == "residual covariance" & model.param$lhs == i), ])
}
}
#...................
### Merge parameter tables ####
model.param <- data.frame(rbind(print.lv, print.lv.cov, print.res.cov,
model.param[which(!model.param$param %in% c("latent variable", "latent variable covariance", "residual covariance")), ]), row.names = NULL)
# Sort by group
if (isTRUE(!long)) { model.param <- data.frame(misty::df.sort(model.param, group), row.names = NULL) }
#...................
### Labels in parentheses ####
model.param$label <- sapply(model.param$label, function(y) ifelse(y != "", paste0("(", y, ")"), y))
#...................
### Return object ####
return(model.param)
}
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Parameter Estimates Tables ####
param.metric <- param.scalar <- param.strict <- NULL
### Configural invariance model
param.config <- model.fit.param(mod.config.param, long = long)
### Metric invariance model
if (isTRUE(any(c("metric", "scalar", "strict") %in% invar))) { param.metric <- model.fit.param(mod.metric.param, long = long) }
### Scalar invariance model
if (isTRUE(any(c("scalar", "strict") %in% invar))) { param.scalar <- model.fit.param(mod.scalar.param, long = long) }
### Strict invariance model
if (isTRUE(invar == "strict")) { param.strict <- model.fit.param(mod.strict.param, long = long) }
#~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Return object ####
object <- list(call = match.call(),
type = "item.invar",
data = x,
args = list(model = model, rescov = rescov, rescov.long = rescov.long,
long = long, cluster = cluster, invar = invar, partial = partial,
ident = ident, ordered = ordered, estimator = estimator,
missing = missing, null.model = null.model, print = print, print.fit = print.fit,
mod.minval = mod.minval, resid.minval = resid.minval,
digits = digits, p.digits = p.digits, as.na = as.na, write = write,
check = check, output = output),
model = list(config = mod.config, metric = mod.metric, scalar = mod.scalar, strict = mod.strict),
model.fit = list(config = mod.config.fit, metric = mod.metric.fit, scalar = mod.scalar.fit, strict = mod.strict.fit),
check = list(config = list(vcov = mod.config.fit.check["check.vcov"], theta = mod.config.fit.check["check.theta"], cov.lv = mod.config.fit.check["check.cov.lv"]),
metric = list(vcov = mod.metric.fit.check["check.vcov"], theta = mod.metric.fit.check["check.theta"], cov.lv = mod.metric.fit.check["check.cov.lv"]),
scalar = list(vcov = mod.scalar.fit.check["check.vcov"], theta = mod.scalar.fit.check["check.theta"], cov.lv = mod.scalar.fit.check["check.cov.lv"]),
strict = list(vcov = mod.strict.fit.check["check.vcov"], theta = mod.strict.fit.check["check.theta"], cov.lv = mod.strict.fit.check["check.cov.lv"])),
result = list(summary = unname(lavaan.summary), coverage = coverage,
descript = itemstat, itemfreq = itemfreq,
fit = list(stand = fit.stand, scaled = fit.scaled, robust = fit.robust),
param = list(config = param.config, metric = param.metric, scalar = param.scalar, strict = param.strict),
modind = list(config = mod.config.modind, metric = mod.metric.modind, scalar = mod.scalar.modind, strict = mod.strict.modind),
score = list(metric = mod.metric.score, scalar = mod.scalar.score, strict = mod.strict.score),
resid = list(config = mod.config.resid, metric = mod.metric.resid, scalar = mod.scalar.resid, strict = mod.strict.resid)))
class(object) <- "misty.object"
#_____________________________________________________________________________
#
# Write Results --------------------------------------------------------------
if (isTRUE(!is.null(write))) { misty::write.result(object, file = write) }
#_____________________________________________________________________________
#
# Output ---------------------------------------------------------------------
if (isTRUE(output)) { print(object, check = FALSE) }
return(invisible(object))
}
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