SlimR (version 1.1.0)

calculate_expression: Counts average expression of gene set (Use in package)

Description

Counts average expression of gene set (Use in package)

Usage

calculate_expression(
  object,
  features,
  assay = NULL,
  cluster_col = NULL,
  colour_low = "white",
  colour_high = "navy"
)

Value

Average expression genes and relatied informations in the input "Seurat" object given "cluster_col" and given "features".

Arguments

object

Enter a Seurat object.

features

Enter one or a set of markers.

assay

Enter the assay used by the Seurat object, such as "RNA". Default parameters use "assay = NULL".

cluster_col

Enter the meta.data column in the Seurat object to be annotated, such as "seurat_cluster". Default parameters use "cluster_col = NULL".

colour_low

Color for lowest expression level. (default = "white")

colour_high

Color for highest expression level. (default = "black")

See Also

Other Section_1_Functions_Use_in_Package: calculate_cluster_variability(), calculate_expression_skewness(), calculate_probability(), compute_adaptive_parameters(), estimate_batch_effect(), extract_dataset_features()