Shared server logic for the differential-scatter plot modules

Wires up the selectmatrix, contrasts, geneselect, scatterplot and simpletable modules in the way common to volcanoplot, maplot and foldchangeplot. The caller supplies buildTable to derive the module-specific numeric matrix and buildLines to derive the module-specific threshold lines; the colorby/label annotation (see annotateDifferentialTable) and plot title are identical across all three and applied here.

Usage

differentialscatterLogic(
  input,
  output,
  session,
  eselist,
  scatter_id,
  buildTable,
  buildLines,
  filename,
  require_contrast_stats = FALSE
)

Arguments

input, output, session

The Shiny input/output/session of the calling module

eselist

ExploratorySummarizedExperimentList object containing ExploratorySummarizedExperiment objects

scatter_id

Sub-namespace matching the one passed to differentialscatterInput

buildTable

Function of contrast_reactives returning the module-specific data frame, before colorby/label annotation. Its first two columns are used as the plotted x and y values.

buildLines

Function of the annotated table and contrast_reactives returning the threshold-line data frame

filename

Base filename used for the exported table

require_contrast_stats

Restrict eselist to experiments with a populated contrast_stats slot

Details

Must be called from within the caller's own moduleServer() - it does not open its own namespace.