Mean-Standard Deviation Plot

Plots the marker-specific standard deviation over marker-specific means for log2-normalized read counts. Bounds for the definition of positive and negative controls can be highlighted by vertical lines (if given).

Usage

plotMeanSD(raw, tZero, tPoor, tWell, title, xlim.max = NA, ylim.max = NA)

Arguments

raw

Raw read count matrix (rows = genes, cols = samples).

tZero

Optional. Lower bound for negative controls.

tPoor

Optional. Upper bound for negative controls.

tWell

Optional. Lower bound for positive controls.

title

Plot title

xlim.max

Upper limit of the x-axis

ylim.max

Upper limit of the y-axis

Value

ggplot2 object of the mean-sd plot

Examples

counts <- matrix(rnbinom(1000, mu=3, size=0.01), nrow=50)
plotMeanSD(counts)