rtracklayer (version 1.32.1)

browseGenome: Browse a genome

Description

A generic function for launching a genome browser.

Usage

browseGenome(object, ...)
"browseGenome"(object, browser = "UCSC", range = base::range(object), view = TRUE, trackParams = list(), viewParams = list(), name = "customTrack", ...)

Arguments

object

A GRanges object or a list of GRanges objects (e.g. a GenomicRangesList object).

browser

The name of the genome browser.

range

A genome identifier or a GRanges or RangesList to display in the initial view.

view

Whether to open a view.

trackParams

Named list of parameters to pass to track<-.

viewParams

Named list of parameters to pass to browserView.

name

The name for the track.

...

Arguments passed to browserSession.

Value

Returns a BrowserSession.

See Also

BrowserSession and BrowserView, the two main classes for interfacing with genome browsers.

Examples

  ## Not run: 
#   ## open UCSC genome browser:
#   browseGenome()
#   ## to view a specific range:
#   range <- GRangesForUCSCGenome("hg18", "chr22", IRanges(20000, 50000))
#   browseGenome(range = range)
#   ## a slightly larger range:
#   browseGenome(range = range, end = 75000)
#   ## with a track:
#   track <- import(system.file("tests", "v1.gff", package = "rtracklayer"))
#   browseGenome(GRangesList(track))
#   ## End(Not run)