sc3_plot_markers: Plot expression of marker genes identified by 'SC3' as a...

In SC3: Single-Cell Consensus Clustering

Description

By default the genes with the area under the ROC curve (AUROC) > 0.85 and with the p-value < 0.01 are selected and the top 10 marker genes of each cluster are visualized in this heatmap.

Usage

sc3_plot_markers.SingleCellExperiment(object, k, auroc, p.val, show_pdata)

## S4 method for signature 'SingleCellExperiment'
sc3_plot_markers(object, k, auroc = 0.85,
  p.val = 0.01, show_pdata = NULL)

Arguments

object	an object of 'SingleCellExperiment' class
k	number of clusters
auroc	area under the ROC curve
p.val	significance threshold used for the DE genes
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 Nov. 8, 2020, 7:52 p.m.