geom_segment {ggbio} | R Documentation |
Show interval data as segments.
## S4 method for signature 'ANY' geom_segment(data, ...) ## S4 method for signature 'GRanges' geom_segment(data,..., xlab, ylab, main, facets = NULL, stat = c("stepping", "identity"), group.selfish = TRUE)
data |
A |
... |
Extra parameters such as aes() or |
xlab |
Label for x |
ylab |
Label for y |
main |
Title for plot. |
facets |
Faceting formula to use. |
stat |
Character vector specifying statistics to use. "stepping" with
randomly assigned stepping levels as y varialbe. "identity" allow
users to specify |
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)) ## ====================================================================== ## data.frame call ggplot2::geom_segment ## ====================================================================== ggplot() + geom_segment(data = mtcars, aes(x = mpg, y = wt, xend = mpg + 10, yend = wt + 0.2, fill = cyl)) ## ====================================================================== ## default ## ## ====================================================================== ggplot(gr) + geom_segment() ## or ggplot() + geom_segment(gr) ## ====================================================================== ## facetting and aesthetics ## ====================================================================== ggplot(gr) + geom_segment(facets = sample ~ seqnames, aes(color = strand, fill = strand)) ## ====================================================================== ## stat:identity ## ====================================================================== ggplot(gr) + geom_segment(stat = "identity", aes(y = value)) ## ====================================================================== ## stat:stepping ## ====================================================================== ggplot(gr) + geom_segment(stat = "stepping", aes(y = value, group = pair)) ## ====================================================================== ## group.selfish controls when ## ====================================================================== ggplot(gr) + geom_segment(stat = "stepping", aes(y = value, group = pair), group.selfish = FALSE)