gwasrapidd provides programmatic access to the GWAS Catalog, a manually curated database of published genome-wide association studies from the EMBL-EBI and NHGRI. Each of the four core catalog entities is mapped to an S4 R object, which can be retrieved, inspected, and subset.
What’s covered#
- Introduction – GWAS Catalog entities: studies, associations, variants, traits
- Get GWAS Catalog entities –
get_studies(),get_associations(),get_variants(),get_traits() - S4 class studies – slots and primary key
- S4 class associations – slots and primary key
- S4 class variants – slots and primary key
- S4 class traits – EFO traits table
- Manipulate cases – subset by identifier or position,
union(),bind()