circos.connect: Draw connecting lines/ribons between two sets of points

In circlize: Circular Visualization

Draw connecting lines/ribons between two sets of points

Description

Draw connecting lines/ribons between two sets of points

Usage

circos.connect(x0, y0, x1, y1,
    sector.index = get.current.sector.index(),
    track.index = get.current.track.index(),
    type = c("normal", "segments", "bezier"),
    segments.ratio = c(1, 1, 1),
    col = par("col"),
    border = "black",
    lwd = par("lwd"),
    lty = par("lty"),
    ...)

Arguments

x0	x coordinates for point set 1. The value can also be a two-column matrix.
y0	y coordinates for point set 1.
x1	x coordinates for point set 2. The value can also be a two-column matrix.
y1	y coordinates for point set 2.
sector.index	Index for the sector.
track.index	Index for the track.
type	Which type of connections. Values can be "normal", "segments" and "bezier".
segments.ratio	When type is set to segments, each connecting line is segmented into three parts. This argument controls the length of the three parts of sub-segments.
col	Color of the segments.
border	Border color of the links.
lwd	Line width of the segments.
lty	Line type of the segments.
...	Other arguments.

Examples

circos.initialize(c("a"), xlim = c(0, 1))
circos.track(ylim = c(0, 1), track.height = 0.7, bg.border = NA, 
    panel.fun = function(x, y) {
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[1], 2), col = "#CCCCCC")
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[2], 2), col = "#CCCCCC")
    x0 = runif(100)
    x1 = runif(100)

    circos.connect(x0, 0, x1, 1, 
        type = "normal", border = NA,
        col = rand_color(100, luminosity = "bright", transparency = 0.75))
})

circos.initialize(c("a"), xlim = c(0, 1))
circos.track(ylim = c(0, 1), track.height = 0.7, bg.border = NA, 
    panel.fun = function(x, y) {
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[1], 2), col = "#CCCCCC")
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[2], 2), col = "#CCCCCC")
    x0 = runif(100)
    x1 = runif(100)

    circos.connect(x0, 0, x1, 1, 
        type = "bezier", border = NA,
        col = rand_color(100, luminosity = "bright", transparency = 0.75))
})

circos.initialize(c("a"), xlim = c(0, 1))
circos.track(ylim = c(0, 1), track.height = 0.7, bg.border = NA, 
    panel.fun = function(x, y) {
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[1], 2), col = "#CCCCCC")
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[2], 2), col = "#CCCCCC")
    x0 = sort(runif(200))
    x0 = matrix(x0, ncol = 2, byrow = TRUE)
    x1 = sort(runif(200))
    x1 = matrix(x1, ncol = 2, byrow = TRUE)

    circos.connect(x0, 0, x1, 1, 
        type = "normal", border = NA,
        col = rand_color(100, luminosity = "bright", transparency = 0.5))
})

circos.initialize(c("a"), xlim = c(0, 1))
circos.track(ylim = c(0, 1), track.height = 0.7, bg.border = NA, 
    panel.fun = function(x, y) {
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[1], 2), col = "#CCCCCC")
    circos.lines(CELL_META$cell.xlim, rep(CELL_META$cell.ylim[2], 2), col = "#CCCCCC")
    x0 = sort(runif(500))
    x0 = matrix(x0, ncol = 2, byrow = TRUE)
    x0 = x0[sample(nrow(x0), nrow(x0)), ]
    x1 = sort(runif(500))
    x1 = matrix(x1, ncol = 2, byrow = TRUE)
    x1 = x1[sample(nrow(x1), nrow(x1)), ]

    l = abs(x0[, 1] - x1[, 1]) < 0.5

    circos.connect(x0[l ,], 0, x1[l, ], 1, 
        type = "bezier", border = NA,
        col = rand_color(sum(l), luminosity = "bright", transparency = 0.5))
})

circlize documentation built on May 29, 2024, 1:59 a.m.