This function Calls STRING's API to Convert a set of identifiers to STRING Identifiers. Although You can call STRING services with a variety of common identifiers, It is recommended by STRING's documentations that you first map Your Protein/genes IDs to STRING IDs and then proceed with other STRING's functions.

rba_string_map_ids(ids, species = NULL, echo_query = FALSE, limit = NULL, ...)

Arguments

ids

Your Common gene/protein Identifier(s) to be mapped.

species

Numeric: NCBI Taxonomy identifier; Human Taxonomy ID is 9606. (Recommended, but optional if your input is less than 100 IDs.)

echo_query

(default = FALSE) Include your input IDs as a column of the results.

limit

(Numeric, Optional) A limit on the number of matches per input ID.

...

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

Value

A data frame with the mapped STRING IDs and other pertinent information.

Corresponding API Resources

"POST https://string-db.org/api/[output-format]/get_string_ids?identifiers= [your_identifiers]&[optional_parameters]"

References

  • Szklarczyk D, Gable AL, Lyon D, Junge A, Wyder S, Huerta-Cepas J, Simonovic M, Doncheva NT, Morris JH, Bork P, Jensen LJ, Mering CV. STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res. 2019 Jan 8;47(D1):D607-D613. doi: 10.1093/nar/gky1131. PMID: 30476243; PMCID: PMC6323986.

  • STRING API Documentation

See also

Examples

# \donttest{
rba_string_map_ids(ids = c("TP53", "TNF", "EGFR"), species = 9606)
# }