circos.genomicLink: Add links from two sets of genomic positions

In eilslabs/circlize: Circular Visualization

Description

Add links from two sets of genomic positions

Usage

circos.genomicLink(region1, region2,
    rou = get_most_inside_radius(), rou1 = rou, rou2 = rou,
    col = "black", lwd = par("lwd"), lty = par("lty"), border = col, ...)

Arguments

region1	A genomic data frame
region2	A genomic data frame
rou	Pass to circos.link
rou1	Pass to circos.link
rou2	Pass to circos.link
col	Pass to circos.link, length can be either one or nrow of region1
lwd	Pass to circos.link, length can be either one or nrow of region1
lty	Pass to circos.link, length can be either one or nrow of region1
border	Pass to circos.link, length can be either one or nrow of region1
...	Pass to circos.link

Details

Of course, number of rows should be same in region1 and region2.

If you want to have more controls on links, please use circos.link directly.

References

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

Examples

## Not run: 
set.seed(123)

bed1 = generateRandomBed(nr = 100)
bed1 = bed1[sample(nrow(bed1), 20), ]
bed2 = generateRandomBed(nr = 100)
bed2 = bed2[sample(nrow(bed2), 20), ]
circos.par("track.height" = 0.1, cell.padding = c(0, 0, 0, 0))
circos.initializeWithIdeogram()

circos.genomicLink(bed1, bed2, col = sample(1:5, 20, replace = TRUE), border = NA)
circos.clear()


## End(Not run)

eilslabs/circlize documentation built on May 16, 2019, 1:23 a.m.