EMDomics (version 2.2.2)

plot_ksnull: Plot null distribution of permuted ks scores vs. calculated ks scores.

Description

The median of the randomly permuted KS scores (i.e. the null distribution) is plotted on the x-axis, vs. the observed KS scores on the y-axis. The line y=x is superimposed.

Usage

plot_ksnull(ksobj)

Arguments

ksobj

An KSomics object, typically returned via a call to calculate_ks.

Value

A ggplot object is returned. If the value is not assigned, a plot will be drawn.

See Also

calculate_ks ggplot

Examples

# 100 genes, 100 samples
dat <- matrix(rnorm(10000), nrow=100, ncol=100)
rownames(dat) <- paste("gene", 1:100, sep="")
colnames(dat) <- paste("sample", 1:100, sep="")

# "group A" = first 50, "group B" = second 50
groups <- c(rep("A",50),rep("B",50))
names(groups) <- colnames(dat)

results <- calculate_ks(dat, groups, nperm=10, parallel=FALSE)
plot_ksnull(results)