geom_arrow {ggbio} | R Documentation |
Show interval data as arrows.
## S4 method for signature 'GRanges' geom_arrow(data, ..., xlab, ylab, main, angle = 30, length = unit(0.12, "cm"), type = "open", stat = c("stepping", "identity"), facets = NULL, arrow.rate = 0.03, group.selfish = TRUE)
data |
A |
... |
Extra parameters such as aes() passed. |
xlab |
Label for x |
ylab |
Label for y |
main |
Title for plot. |
angle |
The angle of the arrow head in degrees (smaller numbers produce narrower, pointier arrows). Essentially describes the width of the arrow head. |
length |
A unit specifying the length of the arrow head (from tip to base). |
type |
One of "open" or "closed" indicating whether the arrow head should be a closed triangle. |
stat |
Character vector specifying statistics to use. "stepping" with
randomly assigned stepping levels as y varialbe. "identity" allow
users to specify |
facets |
Faceting formula to use. |
arrow.rate |
Arrow density of the arrow body. |
group.selfish |
Passed to |
A 'Layer'.
Tengfei Yin
set.seed(1) N <- 100 require(GenomicRanges) ## ====================================================================== ## simmulated GRanges ## ====================================================================== gr <- GRanges(seqnames = sample(c("chr1", "chr2", "chr3"), size = N, replace = TRUE), IRanges( start = sample(1:300, size = N, replace = TRUE), width = sample(70:75, size = N,replace = TRUE)), strand = sample(c("+", "-", "*"), size = N, replace = TRUE), value = rnorm(N, 10, 3), score = rnorm(N, 100, 30), sample = sample(c("Normal", "Tumor"), size = N, replace = TRUE), pair = sample(letters, size = N, replace = TRUE)) ## ====================================================================== ## default ## ====================================================================== ggplot(gr) + geom_arrow() # or ggplot() + geom_arrow(gr) ## ====================================================================== ## facetting and aesthetics ## ====================================================================== ggplot(gr) + geom_arrow(facets = sample ~ seqnames, aes(color = strand, fill = strand)) ## ====================================================================== ## stat:identity ## ====================================================================== ggplot(gr) + geom_arrow(stat = "identity", aes(y = value)) ## ====================================================================== ## stat:stepping ## ====================================================================== ggplot(gr) + geom_arrow(stat = "stepping", aes(y = value, group = pair)) ## ====================================================================== ## group.selfish ## ====================================================================== ggplot(gr) + geom_arrow(stat = "stepping", aes(y = value, group = pair), group.selfish = FALSE) ## ====================================================================== ## other options to control arrow angle, density, ... ## ====================================================================== library(grid) ggplot(gr) + geom_arrow(stat = "stepping", aes(y = value, group = pair), arrow.rate = 0.01, legnth = unit(0.3, "cm"), agnle = 45, group.selfish = FALSE)