detect_genes: Detects genes above minimum threshold.

In scfurl/m3addon: This package adds to the popular "monocle3"

Description

For each gene in a cell_data_set object, detect_genes counts how many cells are expressed above a minimum threshold. In addition, for each cell, detect_genes counts the number of genes above this threshold that are detectable. Results are added as columns num_cells_expressed and num_genes_expressed in the rowData and colData tables respectively.

Usage

detect_genes(cds, min_expr = 0, exprs_bin = TRUE, exprs_cuts = 25)

Arguments

cds	Input cell_data_set object.
min_expr	Numeric indicating expression threshold
exprs_bin	Boolean whether to bin genes by mean expression
exprs_cuts	Numeic indicating number of bins if using exprs_bin

Value

Updated cell_data_set object

scfurl/m3addon documentation built on Aug. 9, 2021, 5:30 p.m.