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

In hemberg-lab/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

hemberg-lab/SC3 documentation built on Dec. 18, 2019, 10:02 p.m.