countsBoxplots: Box-plots of (normalized) counts distribution per sample

In PF2-pasteur-fr/SARTools: Statistical Analysis of RNA-Seq Tools

Box-plots of (normalized) counts distribution per sample

Description

Box-plots of raw and normalized counts distributions per sample to assess the effect of the normalization

Usage

countsBoxplots(
  object,
  group,
  col = c("lightblue", "orange", "MediumVioletRed", "SpringGreen"),
  outfile = TRUE,
  ggplot_theme = theme_gray()
)

Arguments

object	a DESeqDataSet object from DESeq2 or a DGEList object from edgeR
group	factor vector of the condition from which each sample belongs
col	colors of the boxplots (one per biological condition)
outfile	TRUE to export the figure in a png file
ggplot_theme	ggplot2 theme function (theme_gray() by default)

Value

A file named countsBoxplots.png in the figures directory containing boxplots of the raw and normalized counts

Author(s)

Marie-Agnes Dillies and Hugo Varet

PF2-pasteur-fr/SARTools documentation built on April 6, 2022, 2:24 a.m.