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Get Supported Enrichment Categories for a Species and miRNA Type

Source: R/mieaa.R
rba_mieaa_cats.Rd

Each combination of species and miRNA type supports a predefined set of enrichment categories. This function retrieves the categories available for a given combination.

Usage

rba_mieaa_cats(mirna_type, species, mode = "all", ...)

Arguments

mirna_type

Character: Type of the miRNA identifiers; either "mature" or "precursor".

species

Character or Numeric: Scientific name, abbreviation, or NCBI taxon ID of one of the following species:

  1. "Homo sapiens", "hsa" or 9606

  2. "Mus musculus", "mmu" or 10090

  3. "Rattus norvegicus", "rno" or 10116

  4. "Arabidopsis thaliana", "ath" or 3702

  5. "Bos taurus", "bta" or 9913

  6. "Caenorhabditis elegans", "cel" or 6239

  7. "Drosophila melanogaster", "dme" or 7227

  8. "Danio rerio", "dre" or 7955

  9. "Gallus gallus", "gga" or 9031

  10. "Sus scrofa", "ssc" or 9823

mode

Character: (default = "all") Category subset to retrieve. One of: "all" to include default and expert categories, "default" to include only default categories, or "expert" to include only expert categories.

...

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

Value

A named character vector whose values are the supported category identifiers and whose names are their descriptions. If the selected subset has no categories, returns character(0).

Corresponding API Resources

"GET https://ccb-compute2.cs.uni-saarland.de/mieaa/api/v1/enrichment_categories/{species}/{mirna_type}/{mode}"

References

  • Ernesto Aparicio-Puerta, Pascal Hirsch, Georges P. Schmartz, Fabian Kern, Tobias Fehlmann, Andreas Keller, miEAA 2023: updates, new functional microRNA sets and improved enrichment visualizations, Nucleic Acids Research, Volume 51, Issue W1, 5 July 2023, Pages W319–W325, https://doi.org/10.1093/nar/gkad392

  • miEAA browsable API tutorial

  • Citation note on miEAA website

See also

Other "miEAA": rba_mieaa_convert_type(), rba_mieaa_convert_version(), rba_mieaa_enrich(), rba_mieaa_enrich_results(), rba_mieaa_enrich_status(), rba_mieaa_enrich_submit()

Examples

# \donttest{
rba_mieaa_cats("mature", "Homo sapiens")
# }