Get Pathway Genes

Extracts genes associated with specific pathways from an annotation collection.

Usage

get_pathway_genes(
  annotation_collection,
  pathway_names,
  annotation = "gene_symbol"
)

Arguments

annotation_collection

A data frame containing pathway annotations. It should have at least two columns: `pathway` and a gene annotation column (e.g., `gene_symbol` or `gene_id`).

pathway_names

A character vector specifying the names of pathways for which to retrieve associated genes.

annotation

A character string specifying the column in `annotation_collection` to use for gene annotations. Default is `"gene_symbol"`.

Value

A character vector of genes associated with the specified pathways.

Details

This function filters the provided annotation collection for the specified pathway names and extracts the corresponding genes based on the selected annotation column.