browserView-methods {rtracklayer}R Documentation

Getting browser views

Description

Methods for creating and getting browser views.

Usage

  browserView(object, segment = genomeSegment(object),
              track = tracks(object), ...)

Arguments

object The object from which to get the views.
segment The genomeSegment to display.
track List of track names to make visible in the view.
... Arguments to pass to methods

Methods

The following methods are defined by rtracklayer.

object = "ucscSession"
browserView(object, segment = genomeSegment(object), track = tracks(object), ...): Creates a browserView of segment with visible tracks named in track. Arguments in ... correspond to slots in the genomeSegment class and override those in segment.
object = "argoSession"
browserView(object, segment = genomeSegment(object), track = tracks(object, segment, TRUE), ...): Creates a browserView of segment with visible tracks named in track. Parameters in ... correspond to slots in the genomeSegment class and override those in segment.

Examples

## Not run: 
  session <- browserSession()
  browserView(session, genomeSegment(start = 20000, end = 50000,
                                     segment = genomeSegment(session)))
  ## equivalent to above, but shorter
  browserView(session, start = 20000, end = 50000)
  ## only view "knownGene" track
  browserView(session, track = "knownGene")
## End(Not run)

[Package rtracklayer version 1.0.0 Index]