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 specified by track. track may be an instance of ucscTrackModes. Arguments in ... should override slots in segment or else match parameters to a ucscTrackModes method for creating a ucscTrackModes instance that will override modes indicated by the track parameter.
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 1.2.2 Index]