teal.modules.general (version 0.8.0)

tm_g_association: teal module: Stack plots of variables and show association with reference variable

Description

Module provides functionality for visualizing the distribution of variables and their association with a reference variable. It supports configuring the appearance of the plots, including themes and whether to show associations.

Usage

tm_g_association(
  label = "Association",
  ref = teal.picks::picks(teal.picks::datasets(), teal.picks::variables(choices =
    is.numeric | teal.picks::is_categorical(min.len = 2, max.len = 10), selected = 1L),
    teal.picks::values()),
  vars,
  show_association = TRUE,
  plot_height = c(600, 400, 5000),
  plot_width = NULL,
  distribution_theme = c("gray", "bw", "linedraw", "light", "dark", "minimal", "classic",
    "void"),
  association_theme = c("gray", "bw", "linedraw", "light", "dark", "minimal", "classic",
    "void"),
  pre_output = NULL,
  post_output = NULL,
  ggplot2_args = teal.widgets::ggplot2_args(),
  transformators = list(),
  decorators = list()
)

Value

Object of class teal_module to be used in teal applications.

Arguments

label

(character(1)) Label shown in the navigation item for the module or module group. For modules() defaults to "root". See Details.

ref

(picks) Reference variable specification created using teal.picks::picks().

vars

(picks) Variables to be associated with the reference variable, specified using teal.picks::picks().

show_association

(logical) optional, whether show association of vars with reference variable. Defaults to TRUE.

plot_height

(numeric) optional, specifies the plot height as a three-element vector of value, min, and max intended for use with a slider UI element.

plot_width

(numeric) optional, specifies the plot width as a three-element vector of value, min, and max for a slider encoding the plot width.

distribution_theme, association_theme

(character) optional, ggplot2 themes to be used by default. Default to "gray".

pre_output

(shiny.tag) optional, text or UI element to be displayed before the module's output, providing context or a title. with text placed before the output to put the output into context. For example a title.

post_output

(shiny.tag) optional, text or UI element to be displayed after the module's output, adding context or further instructions. Elements like shiny::helpText() are useful.

ggplot2_args

(ggplot2_args) optional, object created by teal.widgets::ggplot2_args() with settings for all the plots or named list of ggplot2_args objects for plot-specific settings. The argument is merged with options variable teal.ggplot2_args and default module setup.

List names should match the following: c("default", "Bivariate1", "Bivariate2").

For more details see the vignette: vignette("custom-ggplot2-arguments", package = "teal.widgets").

transformators

(list of teal_transform_module) that will be applied to transform module's data input. To learn more check vignette("transform-input-data", package = "teal").

decorators

(named list of lists of teal_transform_module) optional, decorator for tables or plots included in the module output reported. The decorators are applied to the respective output objects.

Decorating Module

This module generates the following objects, which can be modified in place using decorators:

• plot (grob created with ggplot2::ggplotGrob())

A Decorator is applied to the specific output using a named list of teal_transform_module objects. The name of this list corresponds to the name of the output to which the decorator is applied. See code snippet below:

tm_g_association(
   ..., # arguments for module
   decorators = list(
     plot = teal_transform_module(...) # applied to the `plot` output
   )
)

For additional details and examples of decorators, refer to the vignette vignette("decorate-module-output", package = "teal.modules.general").

To learn more please refer to the vignette vignette("transform-module-output", package = "teal") or the teal::teal_transform_module() documentation.

Reporting

This module returns an object of class teal_module, that contains a server function. Since the server function returns a teal_report object, this makes this module reportable, which means that the reporting functionality will be turned on automatically by the teal framework.

For more information on reporting in teal, see the vignettes:

• vignette("reportable-shiny-application", package = "teal.reporter")

• vignette("adding-support-for-reporting-to-custom-modules", package = "teal")

Examples in Shinylive

example-1

Open in Shinylive

example-2

Open in Shinylive

Examples

# general data example
data <- teal_data()
data <- within(data, {
  require(nestcolor)
  CO2 <- CO2
  factors <- names(Filter(isTRUE, vapply(CO2, is.factor, logical(1L))))
  CO2[factors] <- lapply(CO2[factors], as.character)
})

app <- init(
  data = data,
  modules = modules(
    tm_g_association(
      ref = teal.picks::picks(
        datasets("CO2"),
        teal.picks::variables(
          choices = c("Plant", "Type", "Treatment"),
          selected = "Plant"
        )
      ),
      vars = teal.picks::picks(
        datasets("CO2"),
        teal.picks::variables(
          choices = c("Plant", "Type", "Treatment"),
          selected = "Treatment",
          multiple = TRUE
        )
      )
    )
  )
)
if (interactive()) {
  shinyApp(app$ui, app$server)
}

# CDISC data example
data <- teal_data()
data <- within(data, {
  require(nestcolor)
  ADSL <- teal.data::rADSL
})
join_keys(data) <- default_cdisc_join_keys[names(data)]

app <- init(
  data = data,
  modules = modules(
    tm_g_association(
      ref = teal.picks::picks(
        datasets("ADSL"),
        teal.picks::variables(
          choices = c("SEX", "RACE", "COUNTRY", "ARM", "STRATA1", "STRATA2", "ITTFL", "BMRKR2"),
          selected = "RACE"
        )
      ),
      vars = teal.picks::picks(
        datasets("ADSL"),
        teal.picks::variables(
          choices = c("SEX", "RACE", "COUNTRY", "ARM", "STRATA1", "STRATA2", "ITTFL", "BMRKR2"),
          selected = "BMRKR2",
          multiple = TRUE
        )
      )
    )
  )
)
if (interactive()) {
  shinyApp(app$ui, app$server)
}