BED (version 1.5.2)

beidsServer: Shiny module for searching BEIDs

Description

Shiny module for searching BEIDs

Usage

beidsServer(
  id,
  toGene = TRUE,
  multiple = FALSE,
  beOfInt = NULL,
  selectBe = TRUE,
  orgOfInt = NULL,
  selectOrg = TRUE,
  tableHeight = 150
)
beidsUI(id)

Value

A reactive data.frame with the following columns:

• beid: the BE identifier

• preferred: preferred identifier for the same BE in the same scope

• be: the type of biological entity

• source: the source of the identifier

• organism: the BE organism

• entity: internal identifier of the BE

• match: the matching character string

Arguments

id

an identifier for the module instance

toGene

focus on gene entities (default=TRUE): matches from other BE are converted to genes.

multiple

allow multiple selections (default=FALSE)

beOfInt

if toGene==FALSE, BE to consider (default=NULL ==> all)

selectBe

if toGene==FALSE, display an interface for selecting BE

orgOfInt

organism to consider (default=NULL ==> all)

selectOrg

display an interface for selecting organisms

tableHeight

height of the result table (default: 150)

Functions

• beidsUI():

Examples

if (FALSE) {
library(shiny)
library(BED)
library(DT)

ui <- fluidPage(
   beidsUI("be"),
   fluidRow(
      column(
         12,
         tags$br(),
         h3("Selected gene entities"),
         DTOutput("result")
      )
   )
)

server <- function(input, output){
   found <- beidsServer("be", toGene=TRUE, multiple=TRUE, tableHeight=250)
   output$result <- renderDT({
      req(found())
      toRet <- found()
      datatable(toRet, rownames=FALSE)
   })
}

shinyApp(ui = ui, server = server)
}