InteractionTrack: Constructor to create an InteractionTrack object

In LTLA/fugi: Further Utilities for Genomic Interactions

Description

Create an InteractionTrack object from an GenomicInteractions object to visualise a specified chromosome.

Usage

InteractionTrack(x, chromosome = "", name = name(x), start = NULL,
  end = NULL)

Arguments

x	A GenomicInteractions object.
chromosome	String specifying which chromosome to use to create a track.
name	String specifying the name of the track.
start	Integer scalar specifying the start location for the track.
end	Integer scalar specifying the end location for the track.

Value

An InteractionTrack object.

Examples

library(Gviz)
anchor.one = GRanges(c("chr1", "chr1", "chr1", "chr1"), 
    IRanges(c(10, 20, 30, 20), width=5))
anchor.two = GRanges(c("chr1", "chr1", "chr1", "chr2"), 
    IRanges(c(100, 200, 300, 50), width=5))

interaction_counts = sample(1:10, 4)
test <- GenomicInteractions(anchor.one, anchor.two, counts=interaction_counts)
metadata(test) <- list(description="this is a test", experiment_name="test")
interactions.track = InteractionTrack(name="Test", test, chromosome="chr1")                        
plotTracks(list(interactions.track), chromosome="chr1", from=0, to=500)

LTLA/fugi documentation built on June 22, 2019, 8:50 p.m.