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Get binding sites of a matrix profile

Source: R/jaspar.R
rba_jaspar_sites.Rd

Use this function to retrieve a list of transcription factor binding sites associated with a matrix profile.

Usage

rba_jaspar_sites(matrix_id, ...)

Arguments

matrix_id

Character: A matrix profile Identifier. It has "base_id.version" naming schema.

...

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

Value

A list that contains a data frame with binding sites information.

Corresponding API Resources

"GET https://jaspar.elixir.no/api/v1/sites/{matrix_id}/"

References

  • Rauluseviciute I, Riudavets-Puig R, Blanc-Mathieu R, Castro-Mondragon JA, Ferenc K, Kumar V, Lemma RB, Lucas J, Chèneby J, Baranasic D, Khan A, Fornes O, Gundersen S, Johansen M, Hovig E, Lenhard B, Sandelin A, Wasserman WW, Parcy F, Mathelier A JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles Nucleic Acids Res. in_press; doi: 10.1093/nar/gkad1059

  • Khan, A. and Mathelier, A. JASPAR RESTful API: accessing JASPAR data from any programming language. Bioinformatics, 2017, doi: 10.1093/bioinformatics/btx804

  • JASPAR API Documentation

  • Citations note on JASPAR website

See also

Other "JASPAR": rba_jaspar_collections(), rba_jaspar_collections_matrices(), rba_jaspar_matrix(), rba_jaspar_matrix_search(), rba_jaspar_matrix_versions(), rba_jaspar_releases(), rba_jaspar_species(), rba_jaspar_species_matrices(), rba_jaspar_taxons(), rba_jaspar_taxons_matrices(), rba_jaspar_tffm(), rba_jaspar_tffm_search()

Examples

# \donttest{
rba_jaspar_sites("MA0600.1")
# }