SC3 (version 1.1.4)

get_marker_genes: Find marker genes

Description

If the cell labels are available this functions allows a user to calculate marker genes manually.

Usage

get_marker_genes(dataset, labels, auroc.threshold = 0.85, p.val = 0.01)

Arguments

dataset

expression matrix

labels

cell labels corresponding to the columns of the expression matrix

auroc.threshold

area under the ROC curve threshold, by default it is 0.85. Values close to 0.5 will include very weak marker genes, values close to 1 will only include very strong marker genes.

p.val

p-value threshold, by default it is 0.01

Value

data.frame containing the marker genes

Examples

d <- get_marker_genes(treutlein, colnames(treutlein))
head(d)