This function downloads gene sets from specified Enrichr databases and saves them to a specified output directory as a .tsv file per default. The file is named with a timestamp per default to ensure uniqueness (all databases are stored in a single file). This file has 3 columns: DB containing the database name, Geneset, with the genesets, and Gene, with the gene names.
Usage
download_enrichr_databases(
gene_set_lib,
output_dir = here::here(),
filename = NULL
)Arguments
- gene_set_lib
A character vector of database names to download from Enrichr, for example: c("WikiPathways_2019_Human", "NCI-Nature_2016",)
- output_dir
A character string specifying the output directory where the .tsv file will be saved. Defaults to the current working directory.
- filename
Name of the output file (with file extension. Due to commas present in some terms, .tsv is recommended). When left out, the file is named all_databases_timestamp.tsv.