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ui <- function() { shiny::fluidPage(
# Title.
shiny::titlePanel(shiny::HTML(
paste0("Rnaught: An Estimation Suite for R", shiny::tags$sub("0")))),
# Sidebar layout.
shiny::sidebarLayout(
# Sidebar. Hidden if the 'About' tab is selected.
shiny::conditionalPanel(condition = "input.tabset != 'About'",
shiny::sidebarPanel(id = "sidebar",
# Data tab sidebar.
shiny::conditionalPanel(condition = "input.tabset == 'Data'",
shiny::h3("Enter data"),
# Data input method selection.
shiny::radioButtons(inputId = "dataInputMethod", label = "",
choices=list("Manually" = 1, "Upload a .csv file" = 2,
"Paste a .csv file" = 3)),
# Option 1: Manual entry.
shiny::conditionalPanel(condition = "input.dataInputMethod == '1'",
shiny::textInput(inputId = "dataName", label = "Dataset name"),
shiny::span(shiny::textOutput(outputId = "dataNameWarn"),
style = "color: red;"),
shiny::fluidRow(
shiny::column(8,
shiny::textInput(inputId = "dataCounts", label = shiny::HTML(
paste0("Case counts", shiny::tags$sup("[?]",
title = paste0("Enter as a comma-separated list of ",
"positive integers, with at least two ",
"entries. Example: 1,1,2,3,5,8")))))),
shiny::column(4,
shiny::selectInput(inputId = "dataUnits",
label = "Reporting frequency",
choices = list("Daily", "Weekly")))
),
shiny::span(shiny::textOutput(outputId = "dataCountsWarn"),
style = "color: red;")
),
# Option 2: Upload .csv file.
shiny::conditionalPanel(condition = "input.dataInputMethod == '2'",
shiny::fileInput(inputId = "dataUpload", label = "",
accept = c("text/csv", "text/comma-separated-values,text/plain",
".csv")),
),
# Option 3: Paste .csv file.
shiny::conditionalPanel(condition = "input.dataInputMethod == '3'",
shiny::textAreaInput(inputId = "dataPaste", label = "",
rows = 8, resize = "none"),
),
# Warning text for .csv upload / paste.
shiny::conditionalPanel(
condition = "['2', '3'].includes(input.dataInputMethod)",
shiny::span(shiny::textOutput(outputId = "dataCSVWarn"),
style = "color: red;"),
),
# Button to add data.
shiny::actionButton(inputId = "addData", label = "Add"),
),
# Estimators tab sidebar (collapsable entries).
shiny::conditionalPanel(condition = "input.tabset == 'Estimators'",
shiny::h3("Estimators"),
# WHITE & PANAGO (WP).
shiny::tags$details(
shiny::tags$summary(shiny::h4("White & Panago (WP)")),
shiny::p("Method due to [White and Pagano(2008)], assumes a branching process based model. Serial
distribution can be assumed known or can be estimated using maximum likelihood; When serial interval is unknown
the method takes longer to compute, though is still real-time."),
shiny::br(),
shiny::radioButtons(inputId = "serialWPKnown",
label = "Is the mean serial interval known?",
inline = TRUE,
choices = list("Yes" = 1, "No" = 2)),
# Known serial interval.
shiny::conditionalPanel(condition = "input.serialWPKnown == '1'",
shiny::fluidRow(
shiny::column(8,
shiny::textInput(inputId = "serialWPInput",
label = "Mean Serial Interval")),
shiny::column(4,
shiny::selectInput(inputId = "serialWPUnits",
label = "Time units",
choices = list("Days", "Weeks")))
),
shiny::span(shiny::textOutput(outputId = "serialWPWarn"),
style = "color: red;")
),
# Unknown serial interval.
shiny::conditionalPanel(condition = "input.serialWPKnown == '2'",
shiny::h5("Grid Search Parameters"),
shiny::fluidRow(
shiny::column(4,
shiny::textInput(inputId = "gridLengthInput",
label = "Grid length", value = "100")),
shiny::column(4,
shiny::textInput(inputId = "gridShapeInput",
label = "Max. shape", value = "10")),
shiny::column(4,
shiny::textInput(inputId = "gridScaleInput",
label = "Max. scale", value = "10"))
),
shiny::fluidRow(
shiny::column(4,
shiny::span(shiny::textOutput(outputId = "gridLengthWarn"),
style = "color: red;")),
shiny::column(4,
shiny::span(shiny::textOutput(outputId = "gridShapeWarn"),
style = "color: red;")),
shiny::column(4,
shiny::span(shiny::textOutput(outputId = "gridScaleWarn"),
style = "color: red;"))
)
),
shiny::actionButton(inputId = "addWP", label = "Add")
),
# SEQUENTIAL BAYES (seqB).
shiny::tags$details(
shiny::tags$summary(shiny::h4("Sequential Bayes (seqB)")),
shiny::p("This is a description of the method."),
shiny::br(),
shiny::fluidRow(
shiny::column(8,
shiny::textInput(inputId = "serialseqBInput",
label = "Mean Serial Interval")),
shiny::column(4,
shiny::selectInput(inputId = "serialseqBUnits",
label = "Time units",
choices = list("Days", "Weeks")))
),
shiny::span(shiny::textOutput(outputId = "serialseqBWarn"),
style = "color: red;"),
shiny::textInput(inputId = "kappaInput",
label = shiny::HTML(paste0("Maximum value", shiny::tags$sup("[?]",
title = paste0("This describes the prior belief of R0, and ",
"should be set to a higher value if R0 is ",
"believed to be larger. (Default: 20)")))),
value = "20"),
shiny::span(shiny::textOutput(outputId = "kappaWarn"),
style = "color: red;"),
shiny::actionButton(inputId = "addseqB", label = "Add")
),
# INCIDENCE DECAY (ID).
shiny::tags$details(
shiny::tags$summary(shiny::h4("Incidence Decay (ID)")),
shiny::p("This is a description of the method."),
shiny::br(),
shiny::fluidRow(
shiny::column(8,
shiny::textInput(inputId = "serialIDInput",
label = "Mean Serial Interval")),
shiny::column(4,
shiny::selectInput(inputId = "serialIDUnits",
label = "Time units",
choices = list("Days", "Weeks")))
),
shiny::span(shiny::textOutput(outputId = "serialIDWarn"),
style = "color: red;"),
shiny::actionButton(inputId = "addID", label = "Add")
),
# INCIDENCE DECAY & EXPONENTIAL ADJUSTEMENT (IDEA).
shiny::tags$details(
shiny::tags$summary(
shiny::h4("Incidence Decay and Exponential Adjustement (IDEA)")),
shiny::p("This is a description of the method."),
shiny::br(),
shiny::fluidRow(
shiny::column(8,
shiny::textInput(inputId = "serialIDEAInput",
label = "Mean Serial Interval")),
shiny::column(4,
shiny::selectInput(inputId = "serialIDEAUnits",
label = "Time units",
choices = list("Days", "Weeks")))
),
shiny::span(shiny::textOutput(outputId = "serialIDEAWarn"),
style = "color: red;"),
shiny::actionButton(inputId = "addIDEA", label = "Add")
),
shiny::tags$style(type = "text/css",
"summary { display: list-item; cursor: pointer; }"),
shiny::tags$style(type = "text/css",
"summary h4 { display: inline; }")
)
)
),
# Main panel.
shiny::mainPanel(id = "main",
shiny::tabsetPanel(id = "tabset", type = "tabs",
shiny::tabPanel("About", shiny::br(), "Hello"),
shiny::tabPanel("Data", shiny::br(),
shiny::dataTableOutput(outputId = "dataTable"),
shiny::tags$style(type = "text/css",
"#dataTable tfoot { display:none; }")),
shiny::tabPanel("Estimators", shiny::br(),
shiny::dataTableOutput(outputId = "estTable"),
shiny::tags$style(type = "text/css",
"#estTable tfoot { display:none; }"),
shiny::downloadButton(outputId = "downloadEst",
label = "Download table as .csv"))
)
)
)
)}
|
