setup_genesets: Function to setup genesets
In chipenrich: Gene Set Enrichment For ChIP-seq Peak Data

Function to setup genesets

1 2	setup_genesets(gs_codes, ldef_obj, genome, min_geneset_size, max_geneset_size)

`gs_codes`	A character vector of geneset databases to be tested for enrichment. See `supported_genesets()`. Alternately, a file path to a a tab-delimited text file with header and first column being the geneset ID or name, and the second column being Entrez Gene IDs.
`ldef_obj`	A `LocusDefinition` object to use for filtering gene sets based on which genes are defined in the locus defintion.
`genome`	One of the `supported_genomes()`.
`min_geneset_size`	Sets the minimum number of genes a gene set may have to be considered for enrichment testing.
`max_geneset_size`	Sets the maximum number of genes a gene set may have to be considered for enrichment testing.

A list with components consisting of GeneSet objects for each of the elements of genesets. NOTE: Custom genesets must be run separately from built in gene sets.

chipenrich documentation built on Nov. 8, 2020, 8:11 p.m.