R/show_cn_distribution.R
show_cn_distribution.Rd
Visually summarize copy number distribution either by copy number segment length
or chromosome. Input is a CopyNumber object, genome_build
option will
read from genome_build
slot of object.
show_cn_distribution( data, rm_normal = TRUE, mode = c("ld", "cd"), fill = FALSE, scale_chr = TRUE, base_size = 14 )
data | a CopyNumber object. |
---|---|
rm_normal | logical. Whether remove normal copy (i.e. "segVal" equals 2), default is |
mode | either "ld" for distribution by CN length or "cd" for distribution by chromosome. |
fill | when |
scale_chr | logical. If |
base_size | overall font size. |
a ggplot
object
Shixiang Wang w_shixiang@163.com
# Load copy number object load(system.file("extdata", "toy_copynumber.RData", package = "sigminer", mustWork = TRUE )) # Plot distribution p1 <- show_cn_distribution(cn) p1 p2 <- show_cn_distribution(cn, mode = "cd") p2 p3 <- show_cn_distribution(cn, mode = "cd", fill = TRUE) p3