shinyCOMPASS: Start a Shiny Application for Visualizing COMPASS Results
In COMPASS: Combinatorial Polyfunctionality Analysis of Single Cells

Description Usage Arguments See Also Examples

This function takes a COMPASSResult object, and generates a local Shiny application for visualizing the results.

shinyCOMPASS(
  x,
  dir = NULL,
  meta.vars,
  facet1 = "None",
  facet2 = "None",
  facet3 = "None",
  main = "Heatmap of Ag-Specificity Posterior Probabilities",
  stimulation = NULL,
  launch = TRUE,
  ...
)

`x`	An object of class `COMPASSResult`.
`dir`	A location to write out the `.rds` files that will be loaded and used by the Shiny application.
`meta.vars`	A character vector of column names that should be used for potential facetting in the Shiny app. By default, we take all metadata variables; you may want to limit this if you know certain variables are not of interest.
`facet1, facet2, facet3`	Default values for facets in the Shiny app. Each should be the name of a single vector in the metadata.
`main`	A title to give to the heatmap and subset histogram plots.
`stimulation`	The name of the stimulation applied. If this is `NULL`, the stimulations used are inferred from the data (ie, the `COMPASS` call used).
`launch`	Boolean; if `TRUE` we launch the Shiny application. Otherwise, the user can launch it manually by navigating to the directory `dir` and running `shiny::runApp()`.
`...`	Optional arguments passed to `shiny::runApp`.

shinyCOMPASSDeps, for identifying packages that you need in order to run the Shiny application.

if (interactive()) {
  oldOpt <- getOption("example.ask")
  options(example.ask=FALSE)
  on.exit( options(example.ask=oldOpt) )
  shinyCOMPASS(CR)
  options(example.ask=TRUE)
}