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JASPAR organizes matrix profiles from multiple species in six taxonomic groups. Use this function to retrieve a list of available species in a JASPAR database release.

Usage

rba_jaspar_species(release = 2022, search = NULL, order = NULL, ...)

Arguments

release

Numeric: (default = 2022) Which JASPAR database release to use? Available options are: 2014, 2016, 2018, 2020, and 2022.

search

Character: A search term.

order

Character: A character string or a vector of character strings of field names that will be used to order the results.
Providing multiple field names is supported. You can also use prefix "-" before a field name to indicate reverse ordering.

...

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

Value

A data frame with information of available species.

Corresponding API Resources

"GET "https://jaspar.genereg.net/api/v1/species/"

References

  • Jaime A Castro-Mondragon, Rafael Riudavets-Puig, Ieva Rauluseviciute, Roza Berhanu Lemma, Laura Turchi, Romain Blanc-Mathieu, Jeremy Lucas, Paul Boddie, Aziz Khan, Nicolás Manosalva Pérez, Oriol Fornes, Tiffany Y Leung, Alejandro Aguirre, Fayrouz Hammal, Daniel Schmelter, Damir Baranasic, Benoit Ballester, Albin Sandelin, Boris Lenhard, Klaas Vandepoele, Wyeth W Wasserman, François Parcy, Anthony Mathelier, JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles, Nucleic Acids Research, Volume 50, Issue D1, 7 January 2022, Pages D165–D173, https://doi.org/10.1093/nar/gkab1113

  • JASPAR API Documentation

  • Citations note on JASPAR website

Examples

# \donttest{
rba_jaspar_species(release = 2022)
# }