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', min_gset_size = 20, max_gset_size = 100)