rfamTextSearchFamilyAccession: Search the Rfam database by a given keyword

In rfaRm: An R interface to the Rfam database

Description

Searches the Rfam database for entries containing a specified keyword, such as "ribozyme" or "FMN", and returns the accession numbers of the Rfam families containing the keyword in its family ID, summary or description.

Usage

rfamTextSearchFamilyAccession(query)

Arguments

query

string with the keyword to be searched in the Rfam database.

Value

A character vector with the accessions of the Rfam families matching the search.

References

Ioanna Kalvari, Joanna Argasinska, Natalia Quinones-Olvera, Eric P Nawrocki, Elena Rivas, Sean R Eddy, Alex Bateman, Robert D Finn, Anton I Petrov, Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families, Nucleic Acids Research, Volume 46, Issue D1, 4 January 2018, Pages D335–D342, https://doi.org/10.1093/nar/gkx1038

https://docs.rfam.org/en/latest/api.html

Examples

# Search Rfam families associated to the keyword "FMN"

rfamTextSearchFamilyAccession("FMN")

rfaRm documentation built on March 16, 2021, 6:01 p.m.