Fetches gene IDs and corresponding pathway IDs and names for the provided organism.

fetch_kegg(species)

Arguments

species

a character value providing an abreviated species name. "hsa" for human, "eco" for E. coli and "sce" for S. cerevisiae. Additional possible names can be found for eukaryotes and for prokaryotes.

Value

A data frame that contains gene IDs with corresponding pathway IDs and names for a selected organism.

Examples

# \donttest{ kegg <- fetch_kegg(species = "hsa") head(kegg)
#> # A tibble: 6 × 4 #> kegg_id pathway_id pathway_name uniprot_id #> <chr> <chr> <chr> <chr> #> 1 hsa:10327 path:hsa00010 Glycolysis / Gluconeogenesis - Homo sapien… P14550 #> 2 hsa:10327 path:hsa00010 Glycolysis / Gluconeogenesis - Homo sapien… V9HWI0 #> 3 hsa:124 path:hsa00010 Glycolysis / Gluconeogenesis - Homo sapien… P07327 #> 4 hsa:125 path:hsa00010 Glycolysis / Gluconeogenesis - Homo sapien… P00325 #> 5 hsa:125 path:hsa00010 Glycolysis / Gluconeogenesis - Homo sapien… V9HW50 #> 6 hsa:126 path:hsa00010 Glycolysis / Gluconeogenesis - Homo sapien… P00326
# }