Generate the GRN trans integration panel of the shiny app

These are the UI and server components of the GRN trans integration panel of the shiny app. It is generated by including at least 1 row in the trans.integration parameter of generateShinyApp.

Usage

GRNTransPanelUI(id, reference.table.name, comparison.table.name)

GRNTransPanelServer(
  id,
  expression.matrix,
  anno,
  anno.comparison,
  expression.matrix.comparison,
  tablenames,
  seed = 13
)

Arguments

id: the input slot that will be used to access the value
expression.matrix: the expression matrix; rows correspond to genes and columns correspond to samples; usually preprocessed by preprocessExpressionMatrix; a list (of the same length as modality) can be provided if #' length(modality) > 1
anno: annotation data frame containing a match between the row names of the expression.matrix (usually ENSEMBL IDs) and the gene names that should be rendered within the app and in output files; this object is created by generateShinyApp using the org.db specified
anno.comparison: annotation data frame containing a match between the row names of the comparison expression matrix and the names that should be rendered within the app and in output files. The structure matches the anno table created in generateShinyApp using the org.db specified
expression.matrix.comparison: Additional expression matrix to integrate. Column names must match column names from expression.matrix.
tablenames, reference.table.name, comparison.table.name: Names for reference and comparison expression tables.
seed: Random seed to create reproducible GRNs

Value

The UI and Server components of the shiny module, that can be used within the UI and Server definitions of a shiny app.