plotCountHist: Read count histogram

In LXQin/DANA: Data-driven Normalization Assessment for miRNA-Seq Data

Read count histogram

Description

Plots a histogram of the marker-specific mean of log2-transformed read counts. Bounds for the definition of positive and negative controls can be highlighted by vertical lines (if given).

Usage

plotCountHist(raw, binwidth = 0.1, tZero, tPoor, tWell, title)

Arguments

raw	Raw read count matrix (rows = genes, cols = samples).
binwidth	Optional. The width of the bins as a numeric value. Default is 0.1.
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 read count histogram

Examples

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

LXQin/DANA documentation built on March 7, 2024, 3:24 a.m.