Update with sweetalertR
#install_github("timelyportfolio/sweetalertR") library(shiny) library(sweetalertR) runApp(shinyApp( ui = fluidPage( actionButton("go", "Go"), sweetalert(selector = "#go", text = "hello", title = "world") ), server = function(input, output, session) { } ))

Example 1
You can do something like this, note that the code is taken from the demo on the submit button with a popup (IN PROGRESS)
rm(list = ls()) library(shiny) ui =basicPage( tags$head( tags$style(type='text/css', "select, textarea, input[type='text'] {margin-bottom: 0px;}" , "#submit { color: rgb(255, 255, 255); text-shadow: 0px -1px 0px rgba(0, 0, 0, 0.25); background-color: rgb(189,54,47); background-image: -moz-linear-gradient(center top , rgb(238,95,91), rgb(189,54,47)); background-repeat: repeat-x; border-color: rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.1) rgba(0, 0, 0, 0.25); }" ), tags$script(HTML(' Shiny.addCustomMessageHandler("jsCode", function(message) { eval(message.value); } );' )) ) , textInput(inputId = "inText", label = "", value = "Something here") , actionButton(inputId = "submit", label = "Submit")
Example 2
Using ShinyBS package
rm(list = ls()) library(shiny) library(shinyBS) campaigns_list <- letters[1:10] ui =fluidPage( checkboxGroupInput("campaigns","Choose campaign(s):",campaigns_list), actionLink("selectall","Select All"), bsModal("modalExample", "Yes/No", "selectall", size = "small",wellPanel( actionButton("no_button", "Yes"), actionButton("yes_button", "No") )) ) server = function(input, output, session) { observe({ if(input$selectall == 0) return(NULL) else if (input$selectall%%2 == 0) { updateCheckboxGroupInput(session,"campaigns","Choose campaign(s):",choices=campaigns_list) } else { updateCheckboxGroupInput(session,"campaigns","Choose campaign(s):",choices=campaigns_list,selected=campaigns_list) } }) } runApp(list(ui = ui, server = server))
Edit for Apricot
rm(list = ls()) library(shiny) library(shinyBS) campaigns_list <- letters[1:10] ui =fluidPage( checkboxGroupInput("campaigns","Choose campaign(s):",campaigns_list), actionLink("selectall","Select All"), bsModal("modalExample", "Yes/No", "selectall", size = "small",wellPanel( actionButton("yes_button", "Yes"), actionButton("no_button", "No") )) ) server = function(input, output, session) { observeEvent(input$no_button,{ updateCheckboxGroupInput(session,"campaigns","Choose campaign(s):",choices=campaigns_list) }) observeEvent(input$yes_button,{ updateCheckboxGroupInput(session,"campaigns","Choose campaign(s):",choices=campaigns_list,selected=campaigns_list) }) } runApp(list(ui = ui, server = server))