Identify cell cycle-related genes by using variance explained threshold.

For more details see the HVG selection section in 02_norm_clustering.yaml config.

Usage

sce_get_cc_genes(sce, var_expl_threshold, variable = "phase", ...)

Arguments

sce

A SingleCellExperiment object.

var_expl_threshold

A numeric scalar: threshold for variance explained. Features exceeding this threshold will be marked as CC-related.

variable

A character scalar: column to use for calculation of variance explained.

...

Passed to scater::getVarianceExplained().

Value

A character vector of gene IDs marked as CC-related.