plot_sample_clustering: Plot clustering of samples in a distance heatmap

In RNAseqQC: Quality Control for RNA-Seq Data

Plot clustering of samples in a distance heatmap

Description

Plot clustering of samples in a distance heatmap

Usage

plot_sample_clustering(
  se,
  n_feats = 500,
  anno_vars = NULL,
  anno_title = "group",
  distance = "euclidean",
  ...
)

Arguments

se	A SummarizedExperiment object.
n_feats	Number of top-variable features (genes) to consider
anno_vars	Character vector of columns in colData(se) to annotate samples
anno_title	The title of the color legend for anno_vars
distance	The type of distance metric to consider. Either 'euclidean', 'pearson' or 'spearman'
...	Other arguments passed on to ComplexHeatmap::Heatmap()

Value

A Heatmap-class object of the ComplexHeatmap package that contains the heatmap of pairwise sample distances.

Examples

library("DESeq2")
dds <- makeExampleDESeqDataSet(m=8, interceptMean=10)
vsd <- vst(dds)
plot_sample_clustering(vsd)

RNAseqQC documentation built on July 1, 2024, 9:07 a.m.