plot_circle: Create a circle plot of the given fusions.

In stianlagstad/chimeraviz: Visualization tools for gene fusions

Create a circle plot of the given fusions.

Description

This function takes a list of Fusion objects and creates a circle plot indicating which chromosomes the fusion genes in the list consists of.

Usage

plot_circle(fusion_list)

Arguments

fusion_list

A list of Fusion objects.

Details

Note that only a limited number of gene names can be shown in the circle plot due to the limited resolution of the plot. RCircos will automatically limit the number of gene names shown if there are too many.

Value

Creates a circle plot.

Examples

defuse833ke <- system.file(
  "extdata",
  "defuse_833ke_results.filtered.tsv",
  package="chimeraviz")
fusions <- import_defuse(defuse833ke, "hg19", 3)
# Temporary file to store the plot
pngFilename <- tempfile(
  pattern = "circlePlot",
  fileext = ".png",
  tmpdir = tempdir())
# Open device
png(pngFilename, width = 1000, height = 750)
# Plot!
plot_circle(fusions)
# Close device
dev.off()

stianlagstad/chimeraviz documentation built on Dec. 3, 2023, 8:11 p.m.