Genomic rainfall plot

Description

Genomic rainfall plot

Usage

circos.genomicRainfall(data, ylim = c(0, 9), col = "black", pch = par("pch"),
    cex = par("cex"), ...)

Arguments

Details

This is high-level graphical function, which mean, it will create a new track.

Rainfall plot can be used to visualize distribution of regions. On the plot, y-axis corresponds to the distance to neighbour regions (log-based). So if there is a drop-down on the plot, it means there is a cluster of regions at that area.

On the plot, y-axis are log10-transformed.

References

Gu, Z. (2014) circlize implements and enhances circular visualization in R. Bioinformatics.

Examples

## Not run: 
library(circlize)

par(mar = c(1, 1, 1, 1))

load(paste(system.file(package = "circlize"), "/extdata/DMR.RData", sep=""))

# rainfall
circos.initializeWithIdeogram(plotType = c("axis", "labels"))

bed_list = list(DMR_hyper, DMR_hypo)
circos.genomicRainfall(bed_list, pch = 16, cex = 0.4, col = c("#FF000080", "#0000FF80"))

circos.genomicDensity(bed_list[[1]], col = c("#FF000080"), track.height = 0.1)
circos.genomicDensity(bed_list[[2]], col = c("#0000FF80"), track.height = 0.1)

circos.clear()


## End(Not run)

Results