GenomicInteractions (version 1.6.2)

InteractionTrack: Constructor to create an InteractionTrack object

Description

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

Usage

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

Arguments

x

A GenomicInteractions object

chromosome

specify which chromosome to hold information on - can be null

name

specify the name of the track - if null takes it to be the name of the GenomicInteractions passed

start

specify which start location to hold information on - can be null

end

specify which end location to hold information on - can be null

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, experiment_name="test", 
                           description="this is a test", counts=interaction_counts)
interactions.track = InteractionTrack(name="Test", test, chromosome="chr1")                        
plotTracks(list(interactions.track), chromosome="chr1", from=0, to=500)