GRNCisPanel {bulkAnalyseR}

Generate the GRN cis integration panel of the shiny app

Description

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

Usage

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

GRNCisPanelServer(
  id,
  expression.matrix,
  anno,
  coord.table.reference,
  coord.table.comparison,
  seed = 13
)

Arguments

id

the input slot that will be used to access the value

reference.table.name

Name for reference expression matrix and coordinate table

comparison.table.name

Name for comparison coordinate table

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

coord.table.reference

Table of coordinates corresponding to rows of expression.matrix

coord.table.comparison

Table of coordinates to compare against coord.table.reference

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.