The server function of the heatmap module

Three types of heatmaps are provided, employed in various places in the rnaseq app (for example), and using much of the same code. Expresssion heatmaps plot expression for samples by column and e.g. genes by row. A samples heatmap plots samples vs samples to illustrate correlation patterns. A pca heatmap plots the results of anova tests applied to examine the associations between principal components and experimental variables.

Usage

heatmap(id, eselist, type = "expression")

Arguments

id

Module namespace

eselist

ExploratorySummarizedExperimentList object containing ExploratorySummarizedExperiment objects

type

The type of heatmap that will be made. 'expression', 'samples' or 'pca' (default: 'expression')

Details

This function is called directly, using the same id as its UI counterpart, and wraps its logic in moduleServer() (see example).

Examples

data(airway, package = "airway")
ese <- as(airway, "ExploratorySummarizedExperiment")
eselist <- ExploratorySummarizedExperimentList(ese)
#> Creating ExploratorySummarizedExperimentList object

# Almost certainly used via application creation

if (interactive()) {
  heatmap("heatmap", eselist, type = "pca")
  app <- prepare_app("heatmap", eselist)
  shiny::shinyApp(ui = app$ui, server = app$server)
}