igvShiny: Create an igvShiny instance

In paul-shannon/igvShiny: igvShiny: a wrapper of Integrative Genomics Viewer (IGV - an interactive tool for visualization and exploration integrated genomic data)

Create an igvShiny instance

Description

This function is called in the server function of your shiny app

Usage

igvShiny(
  genomeOptions,
  width = NULL,
  height = NULL,
  elementId = NULL,
  displayMode = "squished",
  tracks = list()
)

Arguments

genomeOptions	a list with these fields: genomeName, initialLocus, annotation, dataMode, fasta, fastaIndex, stockGenome, validated
width	a character string, standard css notations, either e.g., "1000px" or "95%"
height	a character string, needs to be an explicit pixel measure, e.g., "800px"
elementId	a character string, the html element id within which igv is created
displayMode	a character string, default "SQUISHED".
tracks	a list of track specifications to be created and displayed at startup

Value

the created widget

Examples

library(igvShiny)
demo_app_file <-
  system.file(package = "igvShiny", "demos", "igvShinyDemo.R")
if (interactive()) {
  shiny::runApp(demo_app_file)
}

paul-shannon/igvShiny documentation built on Aug. 31, 2024, 9:32 a.m.