plot_ksnull: Plot null distribution of permuted ks scores vs. calculated...
In EMDomics: Earth Mover's Distance for Differential Analysis of Genomics Data

Description Usage Arguments Value See Also Examples

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.

1	plot_ksnull(ksobj)

ksobj

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

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

calculate_ks ggplot

# 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)