Nothing
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# install.packages("MplusAutomation")
#
## -----------------------------------------------------------------------------
library(MplusAutomation)
## -----------------------------------------------------------------------------
sessionInfo()
## ---- eval=FALSE--------------------------------------------------------------
#
# update.packages(ask=FALSE, checkBuilt=TRUE)
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# prepareMplusData(
# my_data,
# filename = "C:/Data_Analysis/Prepare Mplus.dat",
# keepCols=c("id", "item1", "item3", "item6"))
#
# prepareMplusData(
# my_other_data,
# filename = "C:/Data_Analysis/Prepare Dropped Mplus.dat",
# dropCols=c("baditem1", "baditem2", "baditem7"))
#
## -----------------------------------------------------------------------------
data(mtcars)
mtcars$gear <- factor(mtcars$gear)
prepareMplusData(mtcars, "mtcars.dat", dummyCode = c("cyl", "am"))
## ---- eval=FALSE, echo = TRUE-------------------------------------------------
#
# runModels("C:/Program Files/Mplus/Mplus Examples/Addendum Examples")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# runModels(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive=TRUE)
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# runModels(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive=TRUE,
# logFile="C:/CFALCA-Comparison-Log.txt")|
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# runModels(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive=TRUE,
# logFile=NULL)
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# runModels(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive=TRUE,
# replaceOutfile="never")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# runModels(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive=TRUE,
# replaceOutfile="modifiedDate")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# runModels(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive=TRUE,
# showOutput=TRUE)
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# runModels_Interactive()
#
## ---- echo = FALSE, out.width = "80%", fig.pos="h", fig.cap = "Figure. Example of using runModels() in an interactive graphical interface."----
knitr::include_graphics("runModels_Interactive-Screenshot.png")
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# allOutput <- readModels(
# "C:/Data_Files/CFANesting",
# recursive=TRUE)
#
# ## assuming there are multiple files in this directory
# ## just model summaries could retained as a data.frame as follows:
#
# library(plyr)
# justSummaries <- do.call("rbind.fill",
# sapply(allOutput,"[", "summaries"))
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# mySummaries <- extractModelSummaries(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive = TRUE)
#
## ---- eval=FALSE, echo=FALSE--------------------------------------------------
#
# summaryStats <- extractModelSummaries(
# "C:/Program Files/Mplus/Mplus Examples/User's Guide Examples/Outputs",
# filefilter="ex4.*")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# summaryStats <- extractModelSummaries(
# "C:/Data_Analysis/Multiclass Models",
# filefilter="[123]{1}-class.*Threshold.*")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# showSummaryTable(
# summaryStats,
# keepCols = c("Title", "LL", "AIC", "BIC", "CFI"),
# sortBy = "AIC")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# showSummaryTable(
# summaryStats,
# dropCols = c("InputInstructions", "Observations", "Parameters"),
# sortBy = "CFI")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# HTMLSummaryTable(
# summaryStats,
# filename = "C:/MyModelSummary.html",
# display = TRUE,
# keepCols = c("Title", "LL", "AIC", "BIC", "AICC"),
# sortBy = "AIC")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# myLatexTable <- LatexSummaryTable(
# summaryStats,
# keepCols = c("Title", "BIC", "Parameters"),
# sortBy = "Parameters",
# caption = "Comparing CFA vs. LCA according to number of parameters",
# label="CFALCATab")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# modelResults <- extractModelParameters(
# "C:/Data_Analysis/Mplus Output.out")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# unstandardizedResults <- modelResults$unstandardized
#
# #equivalently
# standardizedResults <- modelResults[["stdyx.standardized"]]
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# allModelParameters <- extractModelParameters(
# "C:/Data_Analysis/ComparingLCAvCFA",
# recursive = TRUE)
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
# names(allModelParameters)
#
# ## ComparingLCAvCFA.LCA.1.class.LCA.out
# ## ComparingLCAvCFA.LCA.2.class.LCA.out
# ## ComparingLCAvCFA.LCA.3.class.LCA.out
# ## ComparingLCAvCFA.CFA.1.factor.CFA.out
# ## ComparingLCAvCFA.CFA.2.factor.CFA.out
# ## ComparingLCAvCFA.CFA.3.factor.CFA.out
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# TwoFacCFA.STDYX <- allModelParameters$ComparingLCAvCFA.CFA.2.factor.CFA.out$stdyx.standardized
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# unstandardizedOnly <- sapply(allModelParameters, "[", "unstandardized")
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# oldNames <- names(allModelParameters)
# unstandardizedOnly <- sapply(allModelParameters, "[", "unstandardized")
# names(unstandardizedOnly) <- oldNames
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# #add the filename as a field in the data.frame (so it's uniquely identified when combined)
# lapply(names(unstandardizedOnly), function(element) {
# unstandardizedOnly[[element]]$filename <<- element
# })
#
# #this will only work if all data.frames have identical columns (i.e., same Mplus output fields)
# combinedParameters <- do.call("rbind", unstandardizedOnly)
#
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# library(MplusAutomation)
# library(ggplot2)
# modelParams <- extractModelParameters("output_to_plot.out)$unstandardized
# modelParams <- subset(modelParams,
# paramHeader=="Means" &
# LatentClass != "Categorical.Latent.Variables",
# select=c("LatentClass", "param", "est", "se"))
#
# limits <- aes(ymax = est + se, ymin=est - se)
#
# fmmMeanPlot <- ggplot(modelParams, aes(x=param, y=est)) +
# geom_pointrange(limits) +
# scale_x_discrete("") +
# geom_hline(yintercept=0, color="grey50") +
# facet_grid(LatentClass ~ .) +
# theme_bw() +
# ylab("Mean Value") +
# coord_flip()
# print(fmmMeanPlot)
#
## ---- echo = FALSE, out.width = "80%", fig.pos="h", fig.cap = "Figure. Example of graphing finite mixutre model results from Mplus using ggplot2."----
knitr::include_graphics("mplusAutomationFMMPlot.png")
## ---- eval=FALSE, echo=TRUE---------------------------------------------------
#
# parallelModels <- readModels("10_14_Harsh_SelfCon_Impul")
#
# compareModels(parallelModels[["backport.from.grand.model.out"]],
# parallelModels[["backport.from.grand.model.slopesonw1.out"]],
# show = c("diff", "pdiff", "summaries", "unique"),
# equalityMargin = c(param = .05, pvalue = .02),
# sort = "type", diffTest = TRUE, showNS = FALSE)
#
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