MDSPlot: MDS plot of samples (for edgeR objects)

In biomics-pasteur-fr/RNADiff: R Tools for RNA-Seq Projects at Institut Pasteur (Biomics Platform)

Description

MDS plot of samples (for edgeR objects)

Usage

MDSPlot(dge, group, n = min(500, nrow(dge$counts)),
  gene.selection = c("pairwise", "common"), out = TRUE,
  col = c("lightblue", "orange", "MediumVioletRed", "SpringGreen"),
  versionName = ".")

Arguments

dge	an DGEList object
group	vector of the condition from which each sample belongs
n	number of features to keep among the most variant
gene.selection	"pairwise" to choose the top features separately for each pairwise comparison between the samples or "common" to select the same features for all comparisons. Only used when method="logFC"
out	TRUE to export the figure
col	colors of the bars
versionName	versionName of the project

Value

A MDS plot

Author(s)

Marie-Agnes Dillies and Hugo Varet

biomics-pasteur-fr/RNADiff documentation built on Aug. 27, 2020, 12:44 a.m.