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Traverse UniProt Taxonomic Tree Path

Source: R/uniprot_taxonomy.R
rba_uniprot_taxonomy_path.Rd

Traverse upward or downward from a supplied node in the UniProt Taxonomy database tree.

Usage

rba_uniprot_taxonomy_path(id, direction, depth = 5, ...)

Arguments

id

Numeric: An NCBI taxonomic identifier.

direction

Character: Direction of the taxonomic path, either "TOP" or "BOTTOM".

depth

Numeric: (default = 5) Number of taxonomic-tree levels to traverse, from 1 to 5.

...

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

Value

A nested list containing the requested taxonomic path.

Corresponding API Resources

"GET https://www.ebi.ac.uk/proteins/api/taxonomy/path"

References

  • The UniProt Consortium. (2025). UniProt: the Universal Protein Knowledgebase in 2025. Nucleic Acids Research, 53(D1), D609–D617. https://doi.org/10.1093/nar/gkae1010

  • Nightingale, A., Antunes, R., Alpi, E., Bursteinas, B., Gonzales, L., Liu, W., Luo, J., Qi, G., Turner, E., & Martin, M. (2017). The Proteins API: Accessing key integrated protein and genome information. Nucleic Acids Research, 45(W1), W539–W544. https://doi.org/10.1093/nar/gkx237

  • Proteins API Documentation

  • Citations note on UniProt website

See also

Other "UniProt - Taxonomy": rba_uniprot_taxonomy(), rba_uniprot_taxonomy_lca(), rba_uniprot_taxonomy_lineage(), rba_uniprot_taxonomy_name(), rba_uniprot_taxonomy_relationship()

Examples

# \donttest{
rba_uniprot_taxonomy_path(id = 9606, direction = "TOP", depth = 3)
# }
# \donttest{
rba_uniprot_taxonomy_path(id = 207598, direction = "BOTTOM", depth = 3)
# }