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server2.R
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library(shiny)
#require(moonBook)
#require(ztable)
#require(mycor)
#require(ggplot2)
require(plyr)
require(rmarkdown)
require(readxl)
#require(ggthemes)
#require(reshape)
require(rhandsontable)
#require(shinyjs)
require(ReporteRs)
require(lavaan)
require(semPlot)
require(semTools)
require(extrafont)
#require(matrixpls)
require(semMediation)
require(ggplot2)
#require(shinyDND)
require(stringr)
require(mycor)
require(dplyr)
#require(shinyTree)
source("cleaning.R")
source("chooser.R")
#loadfonts()
myexample=read.csv("example.csv")
myequation=myexample$myequation
myfile=myexample$myfile
mymethod=myexample$method
set.seed(1234)
example1 <- data.frame(y = rnorm(100),
x1 = rnorm(100),
x2 = rnorm(100),
x3 = rnorm(100))
set.seed(1234)
X <- rnorm(100)
M <- 0.5*X + rnorm(100)
Y <- 0.7*M + rnorm(100)
example2 <- data.frame(X , Y , M )
#ADHD=read.csv("data/ADHD.csv")
childhood=read.csv("childhood.csv")
load("translation.bin") # contains the dictionary, parsed as a double list
options(ztable.type="html")
options(shiny.maxRequestSize=30*1024^2)
dic=read.csv("dictionary.csv",fileEncoding="utf-8",stringsAsFactors = FALSE)
help_console <- function(topic, format=c("text", "html", "latex", "Rd"),
lines=NULL, before=NULL, after=NULL) {
format=match.arg(format)
if (!is.character(topic)) topic <- deparse(substitute(topic))
helpfile = utils:::.getHelpFile(help(topic))
hs <- capture.output(switch(format,
text=tools:::Rd2txt(helpfile),
html=tools:::Rd2HTML(helpfile),
latex=tools:::Rd2latex(helpfile),
Rd=tools:::prepare_Rd(helpfile)
)
)
if(!is.null(lines)) hs <- hs[lines]
hs <- c(before, hs, after)
cat(hs, sep="\n")
invisible(hs)
}
shinyServer(function(input, output,session) {
shinyjs::onclick("toggleModelPlot", shinyjs::toggle(id = "modelPlot", anim = TRUE))
shinyjs::onclick("toggleFinalPlot", shinyjs::toggle(id = "finalPlot", anim = TRUE))
shinyjs::onclick("toggle2ndEquation", shinyjs::toggle(id = "2ndEquation", anim = TRUE))
shinyjs::onclick("toggleHelpOp", shinyjs::toggle(id = "helpOperator", anim = TRUE))
shinyjs::onclick("toggleHelpData", shinyjs::toggle(id = "helpData", anim = TRUE))
tr <- function(text){ # translates text into current language
sapply(text,function(s) translation[[s]][[input$language]], USE.NAMES=FALSE)
}
tr2out=function(string,size=3){
output[[string]]=renderPrint(cath(tr(string),size))
}
md2html=function(string){
HTML(markdownToHTML(fragment.only=TRUE,text=string))
}
file2ext=function(filename){
namelist=unlist(strsplit(filename,".",fixed=TRUE))
result=namelist[length(namelist)]
if((result=="csv")|(result=="xlsx")) return(result)
else return(NULL)
}
file2newname=function(file){
mypath=unlist(strsplit(file$datapath,"/"))
length(mypath)
temp=mypath[1]
for(i in 2:(length(mypath)-1)) temp=paste(temp,mypath[i],sep="/")
result=paste(temp,"/","test.",file2ext(file$name),sep="")
result
}
my_theme=function(p){
if(input$theme!="gray") {p<-eval(parse(text=paste("p+theme_",input$theme,"()",sep="")))}
p
}
my_readfile=function(file){
ext=file2ext(file$name)
result=NULL
if(is.null(ext)) {
session$sendCustomMessage(type = 'testmessage',
message = list( 'Only file with xlsx or csv format is supported.'))
} else if(ext=="csv") {
try(result<-read.csv(file$datapath,header=TRUE,stringsAsFactors = FALSE),silent=TRUE)
if(is.null(result)) {
try(result<-read.csv(file$datapath,header=TRUE,fileEncoding="euc-kr",stringsAsFactors = FALSE),silent=TRUE)
if(is.null(result)) session$sendCustomMessage(type = 'testmessage',
message = list( 'File read error : please check file encoding'))
}
} else {
newname=file2newname(file)
file.copy(file$datapath,newname)
result=read_excel(newname)
if(is.null(result)) session$sendCustomMessage(type = 'testmessage',
message = list( 'File read error : please check file encoding'))
}
result
}
mypaste=function(tempA,...,sep=","){
result=""
if(tempA=="") result=paste0(...)
else result=paste0(tempA,sep,...)
result
}
myplotPNG=function(listf,width=input$plotWidth,height=input$plotHeight,
units="in",res=300,start=0){
filename=c()
count=length(listf)
if(count>0) for(i in 1:count){
path <- paste("plot_", i+start, ".png", sep="")
filename <- c(filename, path)
plotPNG(listf[[i]],path,width=width,height=height,
units=units,res=res)
}
filename
}
myplotPDF=function(listf,isggplot=NULL,width=input$plotWidth,height=input$plotHeight,
units="in",res=300,start=0){
filename=c()
count=length(listf)
if(is.null(isggplot)) isggplot=rep(FALSE,count)
if(count>0) for(i in 1:count){
path <- paste("plot_", i+start, ".pdf", sep="")
filename <- c(filename, path)
plotPDF(listf[[i]],path,width=width,height=height,
units=units,res=res,isggplot[i])
}
filename
}
plotPDF=function(fun,file,width=7,height=5,units="in",res=300,ggplot=FALSE){
if(ggplot) ggsave(file,fun(),width=width,device=cairo_pdf,height=height,units=units,dpi=res)
else {
cairo_pdf(file,width=width,height=height)
#pdf(file,paper="letter")
fun()
dev.off()
}
}
myplotSVG=function(listf,isggplot=NULL,width=input$plotWidth,height=input$plotHeight,
start=0){
filename=c()
count=length(listf)
if(is.null(isggplot)) isggplot=rep(FALSE,count)
if(count>0) for(i in 1:count){
path <- paste("plot_", i+start, ".svg", sep="")
filename <- c(filename, path)
plotSVG(listf[[i]],path,width=width,height=height,
isggplot[i])
}
filename
}
plotSVG=function(fun,file,width=7,height=5,ggplot=FALSE){
if(ggplot) ggsave(file,fun(),width=width,height=height)
else {
svg(file,width=width,height=height)
#pdf(file,paper="letter")
fun()
dev.off()
}
}
cath=function(string="",size=3){
cat(paste("<h",size,">",string,"</h",size,">",sep=""))
}
sectionReport2=function(reportname){
downloadHandler(
filename = function() {
paste(reportname, sep = '.', switch(
input$format, PDF = 'pdf', HTML = 'html', Word = 'docx'
))
},
content = function(file) {
#if(input$format=="PDF") tempname=paste(reportname,'1.Rmd',sep="")
#else
tempname=paste(reportname,'.Rmd',sep="")
src <- normalizePath(tempname)
# temporarily switch to the temp dir, in case you do not have write
# permission to the current working directory
owd <- setwd(tempdir())
on.exit(setwd(owd))
file.copy(src, tempname)
out <- render(tempname, switch(
input$format,
PDF = pdf_document(), HTML = html_document(), Word = word_document()
))
file.rename(out, file)
}
)
}
output$semReport=sectionReport2("semReport")
putmsg=function(msg="test message"){
session$sendCustomMessage(type = 'testmessage',message = list( msg))
}
values=reactiveValues()
current<-""
currentdir=getwd()
tempdir=tempdir()
owd <- setwd(tempdir)
on.exit(setwd(owd))
setwd(currentdir)
setHot=function(x) values[["Hot"]]=x
observeEvent(input$Example,{
if(input$Example=="uploaded_file") updateTextInput(session,"mydata",value="uploaded")
else updateTextInput(session,"mydata",value=input$Example)
})
origin=reactive({
if(input$mydata=="uploaded") {
if(is.null(input$file)) {
if(input$language=="en") putmsg("Please upload file first !")
else putmsg("먼저 file을 업로드하세요 !")
df<-HolzingerSwineford1939
updateRadioButtons(session,"Example",
selected="HolzingerSwineford1939")
updateTextInput(session,"mydata",
value="HolzingerSwineford1939")
}
else df<-my_readfile(input$file)
}
else {
is.csv=grep(".csv",input$mydata)
if(length(is.csv)==0) df=eval(parse(text=input$mydata))
else df<-read.csv(paste("data/",input$mydata,sep=""),stringsAsFactors = FALSE)
}
values$choice=input$mydata
values$new<-TRUE
df
})
data=reactive({
temp<-input$mydata
if(is.null(input$hot)) DF=origin()
else {
if((current=="")|(current==input$mydata)){
current<<-temp
DF=hot_to_r(input$hot)
} else {
DF=origin()
current<<-temp
}
}
values[["DF"]]=DF
DF
})
observe({
updateSelectInput(session,"base_family",choices=c("Helvetica","NanumGothic",fonts()))
})
output$hot<-renderRHandsontable({
DF=data()
hot=rhandsontable(DF) %>%
hot_context_menu(
customOpts = list(
csv = list(name = "Remove all rows except 1",
callback = htmlwidgets::JS(
"function (key, options) {
this.alter('remove_row',1,this.countRows()-1);
}"))))
hot
})
output$table1<-renderTable({
values$DF
})
df=reactive({
values$DF
})
observe({
df=df()
vars=c("Select..."="",colnames(df))
# For Meta-analysis
updateSelectInput(session,"leftvar",choices=c(vars,"indirect effect","total effect"))
updateSelectInput(session,"rightvar",choices=c(vars,"1"))
updateSelectInput(session,"indepvar",choices=vars)
updateSelectInput(session,"resvar",choices=vars)
updateSelectInput(session,"mediator",choices=vars)
updateSelectInput(session,"group",choices=c("",vars))
if(input$language=="kor") {
shinyjs::html("Title1","<h1>웹에서 하는 R 구조 방정식 모형</h1>")
shinyjs::html("editOrder","<strong>분석 명령어 편집</strong>")
shinyjs::html("summaryOptions","<strong>요약 옵션 선택</strong>")
shinyjs::html("otherOptions","<strong>기타 옵션 선택</strong>")
shinyjs::html("order1","<strong>R 분석명령어 편집</strong>")
shinyjs::html("order2","<strong>R 분석명령어 편집-두번째 모형</strong>")
shinyjs::html("doSEM"," 분 석 하 기 ")
shinyjs::html("ResetEx","예제초기화")
shinyjs::html("showHelpData","데이타 도움말 보기")
shinyjs::html("exportCSV","데이터 CSV로 저장")
shinyjs::html("add","구조방정식에 추가")
shinyjs::html("reset","구조방정식 초기화")
shinyjs::html("semReport","보고서 다운로드")
shinyjs::html("downloadPlot","플롯 다운로드")
shinyjs::html("downloadPPT","파워포인트로 다운로드")
shinyjs::html("helpOp","? 연산자")
shinyjs::html("toggleFinalPlot","<h4>플롯 옵션 보기/가리기</h4>")
shinyjs::html("toggleHelpOp","연산자 도움말" )
shinyjs::html("toggleHelpData","데이터 도움말 보기/가리기")
shinyjs::html("introduction",md2html(
"이 앱을 사용하여 `구조방정식 모형`을 이용한 분석을 할 수 있습니다. `확인요인분석`,`구조방정식 모형`,
`교차타당성분석`,`매개효과분석`,`부분최소회귀모형(PLS)`를 사용한 분석 등을 시행할 수 있습니다.
분석과 함께 멋진 plot을 얻을 수 있으며 plot 을 고해상도 이미지(png)로 저장하거나 벡터그래픽(svg) 또는 pdf 형식으로
다운로드 할 수 있으며 `파워포인트` 파일로도 다운로드 받을 수 있습니다. 자료가 준비된 경우 자료의 분석과 파워포인트 파일
다운로드까지 일분이면 충분합니다."))
updateSelectInput(session, "SelectEx",label="예제 선택",
choices=c("선택안함"=0,"확인요인분석"=1,
"구조방정식모형"=2,"교차타당성분석"=3,
"매개효과분석"=4,
"ADHD 데이타"=6,
"childhood"=7))
updateRadioButtons(session, "method",label = "분석 옵션 선택",
choices=c("구조방정식모형 사용"="sem",
"확인분석모형 사용"="cfa",
"부분최소회귀(PLS)모형 사용"="matrixpls"))
updateRadioButtons(session, inputId = "Example", label = "데이타 선택",
choices = c("HolzingerSwineford1939",
"PoliticalDemocracy",
"example1",
"example2",
"ADHD",
"childhood",
"업로드한 파일"="uploaded_file"),selected=input$Example)
}
else {
shinyjs::html("Title1","<h1>Structural Equation Modeling with R</h1>")
shinyjs::html("editOrder","<strong>Edit Anlysis Order</strong>")
shinyjs::html("summaryOptions","<strong>Summary Options</strong>")
shinyjs::html("otherOptions","<strong>Other Options</strong>")
shinyjs::html("order1","<strong>Edit the Analysis Order</strong>")
shinyjs::html("order2","<strong>Edit the Analysis Order - The 2nd Equation</strong>")
shinyjs::html("doSEM","do Anlaysis")
shinyjs::html("ResetEx","Reset Example")
shinyjs::html("showHelpData","show help Data")
shinyjs::html("exportCSV","Export to CSV")
shinyjs::html("add","add to equation")
shinyjs::html("reset","reset the equation")
shinyjs::html("semReport","download Report")
shinyjs::html("downloadPlot","download Plot(s)")
shinyjs::html("downloadPPT","download pptx")
shinyjs::html("helpOp","? operator")
shinyjs::html("toggleFinalPlot","<h4>Plot Options show/hide</h4>")
shinyjs::html("toggleHelpOp","?Operator" )
shinyjs::html("toggleHelpData","Help for Data show/hide")
shinyjs::html("introduction",md2html(
"With this app, you can perform `structural equation modeling` with `just one-click`.
You can perform the `confirmatory factor analysis`, fit a `structural equation model`,
and fit a `partial least square(PLS) model`.
Additionally, you can obtain beautiful plots in png, svg or pdf format.
You can download the results with html or PDF format.
You can also download the powerpoint file with `just one click`."))
updateSelectInput(session,inputId = "SelectEx",label="Select Example",
choices=c("None"=0,"Confirmatory Factor Analysis"=1,
"Structural Equation Model"=2,
"Cross-Validation Analysis"=3,
"Mediation Effect Analysis"=4,
"ADHD data"=6))
updateRadioButtons(session,"method",label="Analysis options",
choices=c("fit a Structural Equation Model"="sem",
"fit a Confirmatory Factor Analysis Models"="cfa",
"fit a Partial Least Squares Model"="matrixpls"))
updateRadioButtons(session,inputId = "Example", label = "Select Data",
choices = c( "HolzingerSwineford1939",
"PoliticalDemocracy",
"example1",
"example2",
"ADHD",
"uploaded_file"),selected=input$Example)
}
headings=dic$key[dic$class=="output"]
for(i in 2:length(headings)) tr2out(headings[i])
checks=dic$key[dic$class=="Checkbox"]
for(i in 1:length(checks)) updateCheckboxInput(session,checks[i],label=tr(checks[i]))
selects=dic$key[dic$class=="Select"]
for(i in 1:length(selects)) updateSelectInput(session,selects[i],label=tr(selects[i]))
texts=dic$key[dic$class=="Text"]
for(i in 1:length(texts)) updateTextInput(session,texts[i],label=tr(texts[i]))
radios=dic$key[dic$class=="Radio"]
for(i in 1:length(radios)) updateRadioButtons(session,radios[i],label=tr(radios[i]))
numerics=dic$key[dic$class=="Numeric"]
for(i in 1:length(numerics)) updateNumericInput(session,numerics[i],label=tr(numerics[i]))
updateRadioButtons(session,'language',label=tr('language'))
})
observe({
if(input$editAnalysis) updateTextInput(session,"AnalysisOrder",value=myfittext())
#shinyjs::toggleState(id='semReport',condition=TRUE==FALSE)
#shinyjs::toggleState(id='downloadPlot',condition=TRUE==FALSE)
#shinyjs::toggleState(id='downloadPPT',condition=TRUE==FALSE)
})
observe({
if(input$SelectEx!=0){
choice=as.integer(input$SelectEx)
updateRadioButtons(session,"Example",
selected=myfile[choice])
updateTextInput(session,"equation",value=myequation[choice])
updateRadioButtons(session,"method",selected=mymethod[choice])
vars=colnames(origin())
if(choice==3) updateSelectInput(session,"group",choices=c("",vars),selected="school")
else updateSelectInput(session,"group",selected="")
}
})
plustext=function(x){
if(is.null(x)) result=""
if(length(x)>0) result=x[1]
if(length(x)>1) for(i in 2:length(x)) result=paste(result,x[i],sep="+")
result
}
annotatetext=function(x){
if(is.null(x)) result=""
else{
if(length(x)>0) result=paste0("c('",x[1],"'")
if(length(x)>1) {
for(i in 2:length(x)) result=paste0(result,",'",x[i],"'")
}
result=paste0(result,")")
}
result
}
EqText=reactive({
temp=""
if(input$lefttext!="") temp=input$lefttext
else temp=plustext(input$leftvar)
if((temp=="") & (length(input$rightvar)==0)) result<-""
else{
result=paste(temp,input$operator, plustext(input$rightvar))
}
result
})
observeEvent(input$add, {
if(input$equation=="") updateTextInput(session,"equation",value=EqText())
else updateTextInput(session,"equation",value=paste(input$equation,EqText(),sep="\n"))
})
extractLatentVar=function(){
newvar=c()
if(input$equation!=""){
equations=unlist(strsplit(input$equation,"\n",fixed=TRUE))
for(i in 1:length(equations)){
if(grepl("=~",equations[i])==TRUE) {
temp=unlist(strsplit(equations[i],"=~",fixed=TRUE))[1]
newvar=c(newvar,temp)
}
}
}
newvar
}
observeEvent(input$equation,{
newvar=c()
if(input$equation!="") newvar=extractLatentVar()
#cat("\nnewvar=",newvar)
newchoices=c("Select..."="",colnames(df()),newvar)
#cat("\nnewchoices=",newchoices)
updateSelectInput(session,"leftvar",choices=newchoices,selected="")
updateSelectInput(session,"rightvar",choices=newchoices,selected="")
updateSelectInput(session,"indepvar",choices=newchoices)
updateSelectInput(session,"resvar",choices=newchoices)
updateSelectInput(session,"mediator",choices=newchoices)
updateSelectInput(session,"group",choices=newchoices)
updateTextInput(session,"lefttext",value="")
})
# output$Drag=renderUI({
# newvar=extractLatentVar()
# newchoices=c(colnames(df()),newvar)
# tagList(
# p("Available variables"),
# dragSetUI("vars",textval=as.list(newchoices)))
#
#
# })
#
# output$Drop=renderUI({
# tagList(
# p("Independent variables"),
# dropUI("XVars",class = "dropelement",row_n=3,col_n=3),
# p("Mediators"),
# dropUI("MVars",class = "dropelement",row_n=3,col_n=3),
# p("Dependent variables"),
# dropUI("YVars",class = "dropelement",row_n=3,col_n=3),
# p("Discards"),
# dropUI("Discards",row_n=5,col_n=3)
# #,actionButton("ResetDND","Reset")
# )
# })
#
# observeEvent(input$ResetDND,{
# cat("\nResetDND")
# input$XVars=""
# input$MVars=""
# input$YVars=""
# })
#
newchoices=reactive({
df=df()
newvar=extractLatentVar()
newchoices=c(colnames(df),newvar)
temp="structure(list("
for(i in 1:length(newchoices)){
if(i>1) temp=paste0(temp,",")
temp=paste0(temp,newchoices[i],"=''")
}
temp=paste0(temp,"),stopened=TRUE)")
#cat("temp=",temp)
result=eval(parse(text=temp))
result
})
# output$tree <- renderTree({
#
# list(
# allVars=newchoices(),
# independentVars = structure("",stopened=TRUE),
# mediators=structure("",stopened=TRUE),
# dependentVars=structure("",stopened=TRUE)
#
#
# )
#
# })
# output$treestr <- renderPrint({
#
# # shinyTrees will also be available as inputs so you can
# # monitor changes that occur to the tree as the user interacts
# # with it.
# str(input$tree)
#
# cat("independentVars=")
# str(names(input$tree$independentVars))
# cat("\nmediators=")
# str(names(input$tree$mediators))
# cat("dependentVars=")
# str(names(input$tree$dependentVars))
# })
#
observeEvent(input$addMediationEquation, {
updateTextInput(session,"equation",value=paste0(input$equation,"\n",input$mediationEquation))
})
makeMediatorEq=function(){
temp=""
if(length(input$indepvar)*length(input$resvar)*length(input$mediator)==0) temp=""
else {
temp=makeEquation(X=input$indepvar,M=input$mediator,Y=input$resvar)
}
temp
}
observeEvent(input$MakeEquation, {
temp<-makeMediatorEq()
if(temp=="") putmsg("Please Select Variables First")
else {
updateTextInput(session,"mediationEquation",value=temp)
}
})
# observeEvent(input$addMediationEquation2, {
# updateTextInput(session,"equation",value=paste0(input$equation,input$mediationEquation2))
# })
# drop2str=function(x){
# # cat("\nx=")
# # str(x)
# res=unlist(strsplit(str_trim(x),"\n",fixed=TRUE))
# res=str_trim(res)
# res=res[nchar(res)>0]
# # cat("\nres=")
# #str(res)
# res
# }
#
# makeMediatorEq2=function(){
# temp=""
# if(length(input$XVars)*length(input$MVars)*length(input$YVars)==0) temp=""
# else {
# xvar=drop2str(input$XVars)
# mvar=drop2str(input$MVars)
# yvar=drop2str(input$YVars)
#
# temp=makeEquation(X=xvar,M=mvar,Y=yvar)
# }
# temp
# }
#
# observeEvent(input$MakeEquation2, {
#
# temp<-makeMediatorEq2()
# if(temp=="") putmsg("Please Select Variables First")
# else {
# updateTextInput(session,"mediationEquation2",value=temp)
#
# }
#
# })
#
observeEvent(input$reset, {
updateTextInput(session,"equation",value="")
updateSelectInput(session,"leftvar",selected="")
updateSelectInput(session,"rightvar",selected="")
})
observeEvent(input$resetMediation, {
updateTextInput(session,"mediationEquation",value="")
updateSelectInput(session,"indepvar",selected="")
updateSelectInput(session,"mediator",selected="")
updateSelectInput(session,"resvar",selected="")
})
# observeEvent(input$resetMediation2, {
# updateTextInput(session,"mediationEquation2",value="")
#
# })
#
observeEvent(input$ResetEx, {
updateTextInput(session,"equation",value="")
updateSelectInput(session,"SelectEx",selected=0)
updateSelectInput(session,"group",selected="")
updateRadioButtons(session,"method",selected="sem")
updateCheckboxInput(session,"fit.measures",value=FALSE)
})
output$EquationText=renderPrint({
if(EqText()=="") {
if(input$language=="en") cat("Select variables and operators to make a equation !")
else cat("변수와 연산자를 선택하여 구조방정식을 만드세요!")
}
else cat(EqText())
})
output$exportCSV = downloadHandler(
filename="Mydata.csv",
content=function(file){
# temporarily switch to the temp dir, in case you do not have write
# permission to the current working directory
owd <- setwd(tempdir())
on.exit(setwd(owd))
write.csv(df(),file=file,row.names=FALSE)
},
contentType="text/csv"
)
output$downloadReport <- downloadHandler(
filename = function() {
paste('my-report', sep = '.', switch(
input$format, PDF = 'pdf', HTML = 'html', Word = 'docx'
))
},
content = function(file) {
src <- normalizePath('report.Rmd')
# temporarily switch to the temp dir, in case you do not have write
# permission to the current working directory
owd <- setwd(tempdir())
on.exit(setwd(owd))
file.copy(src, 'report.Rmd')
out <- render('report.Rmd', switch(
input$format,
PDF = pdf_document(), HTML = html_document(), Word = word_document()
))
file.rename(out, file)
}
)
# })
# change character variables to factor variables
df1=reactive({
df1=df()
select=sapply(df1,function(x) length(unique(x))<=4)
count=length(which(select==TRUE))
if(count>1) df1[,select]=lapply(df1[,select],factor)
else if(count==1) df1[select]=lapply(df1[select],factor)
df1
})
output$dataHelp<-renderUI({
# if(input$Example=="ADHD"){
# # cath("Data Set fo Teacher's Intervention fo ADHD")
# # cath("id: study identification number",5)
# # cath("gender: male=1, female=2",5)
# # cath("age: age groups 1-4",5)
#
# includeMarkdown("ADHD.md")
#
# } else
htmlOutput("dataHelpHTML")
})
output$operatorHelp<-renderUI({
column(6,wellPanel(
if(input$language=="kor") includeMarkdown("operatork.md")
else includeMarkdown("operator.md")
))
})
output$dataHelpHTML=renderPrint({
if(input$Example=="example1") {
cath("Sample Data Made By the Following Code")
cath("set.seed(1234)",5)
cath("y=rnorm(100)",5)
cath("x1=rnrom(100)",5)
cath("x2=rnrom(100)",5)
cath("x3=rnrom(100)",5)
cath("example1=data.frame(y,x1,x2,x3)",5)
} else if(input$Example=="example2"){
cath("Sample Data Made By the Following Code")
cath("set.seed(1234)",5)
cath("X <- rnorm(100)",5)
cath("M <- 0.5*X + rnorm(100)",5)
cath("Y <- 0.7*M + rnorm(100)",5)
cath("example2 <- data.frame(X , Y , M )",5)
} else help_console(input$Example,"html")
})
output$Howto1=renderUI({
includeMarkdown("Howto1.md")
# if(input$language=="en") includeMarkdown("Howto1.md")
# else includeMarkdown("Howto1k.md")
})
output$Howto2=renderUI({
includeMarkdown("Howto2.md")
# if(input$language=="en") includeMarkdown("Howto2.md")
# else includeMarkdown("Howto2k.md")
})
output$Howto3=renderUI({
includeMarkdown("Howto3.md")
# if(input$language=="en") includeMarkdown("Howto3.md")
# else includeMarkdown("Howto3k.md")
})
output$Howto4=renderUI({
includeMarkdown("Howto4.md")
# if(input$language=="en") includeMarkdown("Howto4.md")
# else includeMarkdown("Howto4k.md")
})
output$Howto5=renderUI({
includeMarkdown("Howto5.md")
# if(input$language=="en") includeMarkdown("Howto5.md")
# else includeMarkdown("Howto5k.md")
})
output$Howto6=renderUI({
includeMarkdown("Howto6.md")
# if(input$language=="en") includeMarkdown("Howto6.md")
# else includeMarkdown("Howto6k.md")
})
output$Howto7=renderUI({
includeMarkdown("Howto7.md")
})
output$Howto8=renderUI({
includeMarkdown("Howto8.md")
})
output$about=renderUI({
if(input$language=="en") includeMarkdown("aboute.md")
else includeMarkdown("about.md")
})
output$citation1=renderPrint({
if(input$language=="kor"){
cat(paste("먼저 방법에서 ",version$version.string,"을 사용하여 통계처리를 하였다.`라고 기술해야 한다. 패키지를 사용하는 경우 패키지를 인용해야 하는데 대부분의 경우 통계분석을 하는데 사용한 모든 R패키지를 다 인용하지는 않는다. 일반적으로 사용되는 통계방법이 아닌 새로운 통계방법이나 통계방법을 특별히 언급해야 할 필요가 있는 경우에만 인용하는 것이 일반적이다. R version 은 달라질 수 있다. R version 및 사용한 패키지 정보는 다음 version() 및 sessionInfo()에서 확인할 수 있다.\n",sep=""))
cat("\n\nR의 version\n\n")
print(version)
cat("\n\n웹 R의 sessionInfo()\n\n")
print(sessionInfo())
cat("\nReferences\n\n")
cat("1. R을 인용할 때:\n")
print(citation())
cat("2. lavaan 패키지의 인용정보\n")
print(citation("lavaan"))
cat("3. semPlot 패키지의 인용정보\n")
print(citation("semPlot"))
} else{
cat(paste("In your 'Method' section, please citate R as 'Analyses were performed using ",version$version.string," statistical software.' You can find informations about R version and sessionInfo as followings.\n",sep=""))
cat("\n\nR version\n\n")
print(version)
cat("\n\nsessionInfo() of r-meta.com\n\n")
print(sessionInfo())
cat("\nReferences\n\n")
cat("1. To citate R:\n")
print(citation())
cat("2. To citate package 'lavaan'\n")
print(citation("lavaan"))
cat("3. To citate package 'semPlot'\n")
print(citation("semPlot"))
}
})
output$sem.ui1=renderUI({
input$doSEM
isolate({
if(input$equation!=""){
#fit<-myfit()
tagList(
# htmlOutput('result0'),
# verbatimTextOutput('semPlotText0'),
# plotOutput('SEMPlot0',height=700),
#
# if(input$equation2!="") verbatimTextOutput('semPlotText02'),
# if(input$equation2!="") plotOutput('SEMPlot02',height=700),
htmlOutput('result2'),
verbatimTextOutput('semText'),
htmlOutput('result1'),
verbatimTextOutput('semPlotText'),
uiOutput('semplot.ui'),
#plotOutput('SEMPlot',height=700),
if(input$equation2!="") verbatimTextOutput('semPlotText2'),
if(input$equation2!="") uiOutput('semplot2.ui')
#plotOutput('SEMPlot2',height=700)
)
}
})
})
output$semplot.ui=renderUI({
input$doSEM
isolate({
if(input$equation!=""){
if(input$group=="") plotOutput('SEMPlot',height=700)
else {
count=length(unique(df()[[input$group]]))
if(count==1) plotOutput('SEMPlot',height=700)
else {
fit<-myfit()
diagram<-mysemPlot(DoNotPlot=TRUE)
semplot_output_list<-lapply(1:count,function(i) {
semplotname<-paste0("semplot",i)
diagram[[i]]$Arguments$DoNotPlot=FALSE
output[[semplotname]] <- renderPlot({
qgraph::qgraph(diagram[[i]])
title(paste0(input$group,"=",i))
})
plotOutput(semplotname,height=700)
})
do.call(tagList,semplot_output_list)
}
}
}