Use this function to retrieve a table of Available species in Reactome.

rba_reactome_species(only_main = FALSE, ...)

Arguments

only_main

Logical: If set to TRUE, will only return species which have either manually-curated or computationally inferred pathways.

...

rbioapi option(s). See rba_options's arguments manual for more information on available options.

Value

Data frame where each row is a species and columns are pertinent information.

Corresponding API Resources

"GET https://reactome.org/ContentService/data/species/all"
"GET https://reactome.org/ContentService/data/species/main"

References

  • Jassal B, Matthews L, Viteri G, Gong C, Lorente P, Fabregat A, Sidiropoulos K, Cook J, Gillespie M, Haw R, Loney F, May B, Milacic M, Rothfels K, Sevilla C, Shamovsky V, Shorser S, Varusai T, Weiser J, Wu G, Stein L, Hermjakob H, D'Eustachio P. The reactome pathway knowledgebase. Nucleic Acids Res. 2020 Jan 8;48(D1):D498-D503. doi: 10.1093/nar/gkz1031. PubMed PMID: 31691815.

  • Reactome Content Services API Documentation

Examples

# \donttest{
rba_reactome_species()
# }
# \donttest{
rba_reactome_species(only_main = TRUE)
# }