Draw x-axis

Draw x-axis

circos.axis(
    h = "top",
    major.at = NULL,
    labels = TRUE,
    major.tick = TRUE,
    sector.index = get.current.sector.index(),
    track.index = get.current.track.index(),
    labels.font = par("font"),
    labels.cex = par("cex"),
    labels.facing = "inside",
    labels.direction = NULL,
    labels.niceFacing = TRUE,
    direction = c("outside", "inside"),
    minor.ticks = 4,
    major.tick.length = mm_y(1),
    lwd = par("lwd"),
    col = par("col"),
    labels.col = par("col"),
    labels.pos.adjust = TRUE)

Arguments

h	Position of the x-axis, can be "top", "bottom" or a numeric value
major.at	If it is numeric vector, it identifies the positions of the major ticks. It can exceed `xlim` value and the exceeding part would be trimmed automatically. If it is `NULL`, about every 10 degrees there is a major tick.
labels	labels of the major ticks. Also, the exceeding part would be trimmed automatically. The value can also be logical (either an atomic value or a vector) which represents which labels to show.
major.tick	Whether to draw major tick. If it is set to `FALSE`, there will be no minor ticks neither.
sector.index	Index for the sector.
track.index	Index for the track.
labels.font	Font style for the axis labels.
labels.cex	Font size for the axis labels.
labels.direction	Deprecated, use `facing` instead.
labels.facing	Facing of labels on axis, passing to `circos.text`
labels.niceFacing	Should facing of axis labels be human-easy.
direction	Whether the axis ticks point to the outside or inside of the circle.
minor.ticks	Number of minor ticks between two close major ticks.
major.tick.length	Length of the major ticks, measured in "current" data coordinate. `convert_y` can be used to convert an absolute unit to the data coordinate.
lwd	Line width for ticks.
col	Color for the axes.
labels.col	Color for the labels.
labels.pos.adjust	Whether to adjust the positions of the first label and the last label so that the first label align to its left and the last label align to its right if they exceed the range on axes. The value can be a vector of length two which correspond to the first label and the last label.

Details

It only draws axes on x-direction.

Examples

sectors = letters[1:8]
circos.par(points.overflow.warning = FALSE)
circos.initialize(sectors, xlim = c(0, 10))
circos.trackPlotRegion(sectors, ylim = c(0, 10), track.height = 0.1,
    bg.border = NA, panel.fun = function(x, y) {
        circos.text(5, 10, get.cell.meta.data("sector.index"))
})

circos.trackPlotRegion(sectors, ylim = c(0, 10))
circos.axis(sector.index = "a")
circos.axis(sector.index = "b", direction = "inside", labels.facing = "outside")
circos.axis(sector.index = "c", h = "bottom")
circos.axis(sector.index = "d", h = "bottom", direction = "inside",
    labels.facing = "reverse.clockwise")
circos.axis(sector.index = "e", h = 5, major.at = c(1, 3, 5, 7, 9))
circos.axis(sector.index = "f", h = 5, major.at = c(1, 3, 5, 7, 9),
    labels = c("a", "c", "e", "g", "f"), minor.ticks = 0)
circos.axis(sector.index = "g", h = 5, major.at = c(1, 3, 5, 7, 9),
    labels = c("a1", "c1", "e1", "g1", "f1"), major.tick = FALSE,
    labels.facing = "reverse.clockwise")
circos.axis(sector.index = "h", h = 2, major.at = c(1, 3, 5, 7, 9),
    labels = c("a1", "c1", "e1", "g1", "f1"), minor.ticks = 2,
    major.tick.length = mm_y(5), labels.facing = "clockwise")
circos.clear()

if(FALSE) {

############### real-time clock #################
factors = letters[1]

circos.par("gap.degree" = 0, "cell.padding" = c(0, 0, 0, 0), "start.degree" = 90)
circos.initialize(sectors, xlim = c(0, 12))
circos.trackPlotRegion(sectors, ylim = c(0, 1), bg.border = NA)
circos.axis(sector.index = "a", major.at = 0:12, labels = "",
    direction = "inside", major.tick.length = mm_y(3))
circos.text(1:12, rep(0.5, 12), 1:12, facing = "downward")

while(1) {
    current.time = as.POSIXlt(Sys.time())
    sec = ceiling(current.time$sec)
    min = current.time$min
    hour = current.time$hour

# erase the clock hands
    draw.sector(rou1 = 0.8, border = "white", col = "white")

sec.degree = 90 - sec/60 * 360
    arrows(0, 0, cos(sec.degree/180*pi)*0.8, sin(sec.degree/180*pi)*0.8)

min.degree = 90 - min/60 * 360
    arrows(0, 0, cos(min.degree/180*pi)*0.7, sin(min.degree/180*pi)*0.7, lwd = 2)

hour.degree = 90 - hour/12 * 360 - min/60 * 360/12
    arrows(0, 0, cos(hour.degree/180*pi)*0.4, sin(hour.degree/180*pi)*0.4, lwd = 2)

Sys.sleep(1)
}
circos.clear()
}

Arguments

Details

See also

Examples