InteractionTrack: Constructor to create an InteractionTrack object

In ComputationalRegulatoryGenomicsICL/GenomicInteractions: Utilities for handling genomic interaction data

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)

ComputationalRegulatoryGenomicsICL/GenomicInteractions documentation built on April 16, 2022, 4:09 a.m.