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load a GFF3 track which, with index, is served up by http

Source: R/igvShiny.R
loadGFF3TrackFromURL.Rd

load a remote GFF3 track

Usage

loadGFF3TrackFromURL(
  session,
  id,
  trackName,
  gff3URL,
  indexURL,
  color = "gray",
  colorTable,
  colorByAttribute,
  displayMode,
  trackHeight = 50,
  visibilityWindow,
  deleteTracksOfSameName = TRUE
)

Arguments

session

an environment or list, provided and managed by shiny

id

character string, the html element id of this widget instance

trackName

character string

gff3URL

character string http url for the bam file, typically very large

indexURL

character string http url for the bam file index, typically small

color

character #RGB or a recognized color name. ignored if colorTable and colorByAttribute provided

colorTable

list, mapping a gff3 attribute, typically biotype, to a color

colorByAttribute

character, name of a gff3 attribute in column 9, typically "biotype"

displayMode

character, "EXPANDED", "SQUISHED" or "COLLAPSED"

trackHeight

numeric defaults to 50

visibilityWindow

numeric, Maximum window size in base pairs for which indexed annotations or variants are displayed

deleteTracksOfSameName

logical, default TRUE

Value

nothing

Examples

library(igvShiny)
demo_app_file <-
  system.file(package = "igvShiny", "demos", "igvShinyDemo-GFF3.R")
if (interactive()) {
  shiny::runApp(demo_app_file)
}