Function for obtaining the gene sets per term and the term descriptions to be used for enrichment analysis.
fetch_gene_set( gene_sets = "KEGG", min_gset_size = 10, max_gset_size = 300, custom_genes = NULL, custom_descriptions = NULL )
Name of the gene sets to be used for enrichment analysis.
Available gene sets are "KEGG", "Reactome", "BioCarta", "GO-All",
"GO-BP", "GO-CC", "GO-MF", "cell_markers", "mmu_KEGG" or "Custom".
If "Custom", the arguments
must be specified. (Default = "KEGG")
minimum number of genes a term must contain (default = 10)
maximum number of genes a term must contain (default = 300)
a list containing the genes involved in each custom term. Each element is a vector of gene symbols located in the given custom term. Names should correspond to the IDs of the custom terms.
A vector containing the descriptions for each custom term. Names of the vector should correspond to the IDs of the custom terms.
a list containing 2 elements
list of vectors of genes contained in each term
vector of descriptions per each term
KEGG_gset <- fetch_gene_set() GO_MF_gset <- fetch_gene_set("GO-MF")