sc3_plot_expression: Plot expression matrix used for SC3 clustering as a heatmap

Description Usage Arguments

Description

The expression panel represents the original input expression matrix (cells in columns and genes in rows) after the gene filter. Genes are clustered by kmeans with k = 100 (dendrogram on the left) and the heatmap represents the expression levels of the gene cluster centers after log2-scaling.

Usage

1
2
3
4
5
sc3_plot_expression.SingleCellExperiment(object, k, show_pdata)

## S4 method for signature 'SingleCellExperiment'
sc3_plot_expression(object, k,
  show_pdata = NULL)

Arguments

object

an object of 'SingleCellExperiment' class

k

number of clusters

show_pdata

a vector of colnames of the pData(object) table. Default is NULL. If not NULL will add pData annotations to the columns of the output matrix


SC3 documentation built on May 2, 2018, 2:08 a.m.