Convert miRNA Identifiers Between Different miRBase Versions

miEAA uses miRBase v22 identifiers. This function converts a set of mature or precursor miRNA identifiers between two supported miRBase versions.

Usage

rba_mieaa_convert_version(
  mirna,
  mirna_type,
  input_version,
  output_version,
  simple_output = FALSE,
  ...
)

Arguments

mirna: Character vector: miRNA identifiers to convert.
mirna_type: Character: Type of the supplied miRNA identifiers; either "mature" or "precursor".
input_version: Numeric: miRBase version of the supplied identifiers.
output_version: Numeric: miRBase version to which the identifiers should be converted.
simple_output: Logical: (default = FALSE) If FALSE, return a two-column data frame containing the input and output identifier mappings. If TRUE, return only the converted identifiers without their association with the supplied identifiers.
...: rbioapi option(s). See rba_options's arguments manual for more information on available options.

Value

Depending on simple_output, a data frame or character vector containing the mappings returned by miEAA. Unrecognized or unmapped supplied identifiers can be omitted from the output.

Corresponding API Resources

"POST https://ccb-compute2.cs.uni-saarland.de/mieaa/api/v1/mirbase_converter/"

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

Examples

# \donttest{
Sys.sleep(1) # to prevent 429 error during R CMD check
rba_mieaa_convert_version(mirna = c("hsa-miR-20b-5p", "hsa-miR-144-5p"),
    mirna_type = "mature", input_version = 22, output_version =  16)
# }