top_by_grep: Select top_genes based on a regular expression search

In dputhier/scigenex: The scigenex package (Single-Cell Informative GENe Explorer)

Select top_genes based on a regular expression search

Description

The clusterSet object contains a top_genes slot that can be used to display genes in heatmaps (see plot_heatmap function). Here the function select top_genes based on a regular expression search

Usage

top_by_grep(object, regexp = NULL, as_list = FALSE)

Arguments

object	A ClusterSet object.
regexp	A regular expression
as_list	Return a list of clusters not a ClusterSet object.

Value

A ClusterSet object or a list (see as_list).

Examples

# Set verbosity to 1 to display info messages only.
set_verbosity(1)

# Load a dataset
load_example_dataset('7871581/files/pbmc3k_medium_clusters')

pbmc3k_medium_clusters <- top_by_grep(pbmc3k_medium_clusters, regexp="^CD")
pbmc3k_medium_clusters@top_genes

dputhier/scigenex documentation built on Feb. 18, 2025, 2:27 p.m.