circlize (version 0.4.1)

circos.trackHist: Draw histogram in cells among a whole track

Description

Draw histogram in cells among a whole track

Usage

circos.trackHist(factors, x, track.height = circos.par("track.height"),
    track.index = NULL, force.ylim = TRUE, col = ifelse(draw.density, "black", NA),
    border = "black", lty = par("lty"), lwd = par("lwd"),
    bg.col = NA, bg.border = "black", bg.lty = par("lty"), bg.lwd = par("lwd"),
    breaks = "Sturges", include.lowest = TRUE, right = TRUE, draw.density = FALSE,
    bin.size = NULL)

Arguments

factors

Factors which represent the categories of data

x

Data on the x-axis

track.index

Index for the track which is going to be updated. Setting it to NULL means creating the plotting regions in the next newest track.

track.height

Height of the track. It is the percentage to the radius of the unit circle. If to update a track, this argument is disabled.

force.ylim

Whether to force all cells in the track to share the same ylim. Btw, ylim is calculated automatically.

col

Filled color for histogram

border

Border color for histogram

lty

Line style for histogram

lwd

Line width for histogram

bg.col

Background color for the plotting regions

bg.border

Color for the border of the plotting regions

bg.lty

Line style for the border of the plotting regions

bg.lwd

Line width for the border of the plotting regions

breaks

see hist

include.lowest

see hist

right

see hist

draw.density

whether draw density lines instead of histogram bars.

bin.size

size of the bins of the histogram

Details

It draw histogram in cells among a whole track. It is also an example to show how to add self-defined high-level graphics by this package.

References

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

Examples

# NOT RUN {
x = rnorm(1600)
factors = sample(letters[1:16], 1600, replace = TRUE)
circos.initialize(factors = factors, x = x)
circos.trackHist(factors = factors, x = x, col = "#999999", 
  border = "#999999")
circos.trackHist(factors = factors, x = x, bin.size = 0.1, 
  col = "#999999", border = "#999999")
circos.trackHist(factors = factors, x = x, draw.density = TRUE, 
  col = "#999999", border = "#999999")
circos.clear()
# }
# NOT RUN {
# }