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Get Reactome Species

Source: R/reactome_content.R
rba_reactome_species.Rd

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

Usage

rba_reactome_species(only_main = FALSE, ...)

Arguments

only_main

Logical: (default = FALSE) 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

  • Ragueneau, E., Gong, C., Sinquin, P., Sevilla, C., Beavers, D., Grentner, A., ... D’Eustachio, P. (2026). The Reactome Knowledgebase 2026. Nucleic Acids Res., 54(D1), D673–D681. doi: 10.1093/nar/gkaf1223

  • Griss J, Viteri G, Sidiropoulos K, Nguyen V, Fabregat A, Hermjakob H. ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis. Mol Cell Proteomics. 2020 Sep 9. doi: 10.1074/mcp. PubMed PMID: 32907876.

  • Reactome Content Services API Documentation

  • Citations note on Reactome website

Examples

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