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plotPar.R
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plotPar.R
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#' Shiny Module Server for Plot Parameters
#'
#' @param id identifier
#' @param contrast_table reactive data frame
#'
#' @return reactive object
#' @importFrom shiny column fluidRow moduleServer NS observeEvent
#' radioButtons reactive reactiveVal reactiveValues renderUI
#' req selectInput tagList uiOutput updateSelectInput
#' @importFrom DT renderDataTable
#' @importFrom foundr ggplot_conditionContrasts summary_conditionContrasts
#' summary_strainstats
#' @export
#'
plotParServer <- function(id, contrast_table) {
shiny::moduleServer(id, function(input, output, session) {
ns <- session$ns
# Parameters
# ordername
# volvert
# volsd
# rownames
# interact
# Input ordername
output$ordername <- shiny::renderUI({
shiny::req(contrast_table())
orders <- c("p.value","kME","size","module")
orders <- orders[!is.na(match(orders, names(contrast_table())))]
shiny::selectInput(ns("ordername"), "Order by:", orders)
})
# Input volvert
vol <- shiny::reactive({ vol_default(shiny::req(input$ordername)) },
label = "vol")
output$volvert <- shiny::renderUI({
shiny::req(vol())
shiny::sliderInput(ns("volvert"),
paste(vol()$label, "line:"),
min = vol()$min, max = vol()$max,
value = vol()$value, step = vol()$step)
})
shiny::observeEvent(
shiny::req(contrast_table(), input$ordername, vol(), info()),
{
maxsd <- min(signif(max(abs(contrast_table()[[info()$col]]), na.rm = TRUE), 2), 5)
shiny::updateSliderInput(session, "volsd", max = maxsd)
if(input$ordername == "p.value") {
maxvert <- min(10, round(-log10(min(contrast_table()$p.value, na.rm = TRUE)), 1))
} else {
maxvert <- vol()$max
}
shiny::updateSliderInput(session, "volvert", max = maxvert)
}, label = "observeSlider")
# Input rownames
info <- shiny::reactive({
# Set up particulars for contrast or stat
if(inherits(shiny::req(contrast_table()), "conditionContrasts"))
list(row = "strain", col = "value", title = "Strains")
else
list(row = "term", col = "SD", title = "Terms")
})
output$rownames <- shiny::renderUI({
title <- shiny::req(info())$title
if(title == "Strains") {
choices <- names(foundr::CCcolors)
} else {
choices <- term_stats(contrast_table(), signal = FALSE, drop_noise = TRUE)
}
shiny::checkboxGroupInput(ns("rownames"), "",
choices = choices, selected = choices, inline = TRUE)
})
###############################################################
input
})
}
#' Shiny Module Input for Plot Parameters
#' @return nothing returned
#' @rdname plotParServer
#' @export
plotParInput <- function(id) {
ns <- shiny::NS(id)
shiny::fluidRow(
shiny::column(4, shiny::uiOutput(ns("ordername"))),
shiny::column(8, shiny::checkboxInput(ns("interact"), "Interactive?")))
}
#' Shiny Module UI for Plot Parameters
#' @return nothing returned
#' @rdname plotParServer
#' @export
plotParUI <- function(id) {
ns <- shiny::NS(id)
# Sliders from Volcano plot display.
shiny::fluidRow(
shiny::column(6, shiny::sliderInput(ns("volsd"),
"SD line:", min = 0, max = 2, value = 1, step = 0.1)),
shiny::column(6, shiny::uiOutput(ns("volvert"))))
}
#' Shiny Module Output for Plot Parameters
#' @return nothing returned
#' @rdname plotParServer
#' @export
plotParOutput <- function(id) {
ns <- shiny::NS(id)
shiny::uiOutput(ns("rownames"))
}
#' Shiny Module App for Plot Parameters
#' @return nothing returned
#' @rdname plotParServer
#' @export
plotParApp <- function() {
ui <- shiny::bootstrapPage(
mainParInput("main_par"), # dataset
shiny::h3("plot_par parameters"),
shiny::h4("plotParInput: ordername, interact"),
plotParInput("plot_par"), # ordername, interact
shiny::h4("plotParUI: volsd, volvert"),
plotParUI("plot_par"), # volsd, volvert (sliders)
shiny::h4("plotParOutput: rownames"),
plotParOutput("plot_par") # rownames (strains/terms)
)
server <- function(input, output, session) {
main_par <- mainParServer("main_par", traitStats)
contrast_table <- contrastTableServer("contrast_table", main_par,
traitSignal, traitStats, customSettings)
plot_par <- plotParServer("plot_par", contrast_table)
}
shiny::shinyApp(ui, server)
}