BioCircos (version 0.3.4)

BioCircosCNVTrack: Create a track with concentric arcs to be added to a BioCircos tracklist

Description

Arcs are defined by a genomic range and radially associated with a numerical value

Usage

BioCircosCNVTrack(trackname, chromosomes, starts, ends, values,
  maxRadius = 0.9, minRadius = 0.5, width = 1, color = "#40B9D4",
  range = 0, ...)

Arguments

trackname

The name of the new track.

chromosomes

A vector containing the chromosomes on which each arc is found. Values should match the chromosome names given in the genome parameter of the BioCircos function.

starts, ends

Vectors containing the coordinates on which each arc begins or ends.

values

A vector of numerical values associated with each bin, used to determine the height of each bar on the track.

minRadius, maxRadius

Where the track should begin and end, in proportion of the inner radius of the plot.

width

The thickness of the arc

color

The color for the arcs, in hexadecimal RGB format.

range

Vector of values to be mapped to the minimum and maximum radii of the track. Default to 0, mapping the minimal and maximal values input in the values parameter.

...

Ignored

Examples

# NOT RUN {
BioCircos(BioCircosCNVTrack('BarTrack', chromosomes = 1:3, starts = 1e+7*2:4, ends = 2.5e+7*2:4, 
  values = 1:3, color = "#BB0000", maxRadius = 0.85, minRadius = 0.55) 
  + BioCircosBackgroundTrack('BGTrack'))
# }